Phage Name: fizzles

Gene Number: 1
dcedwards Added HHPRED Evidence Accession: PF06715.12 Description: Gp5_C ; Gp5 C-terminal repeat (3 copies) Query Range: (19-31) Target Range: (11-23) at 2020-05-04 21:43:36.0
sgconger changed the gene function to NKF at 2020-01-27 23:24:19.0
sgconger changed synteny to The Phagesdb Function Frequency had no data available, while the Blastp had evidence of hypothetical protein for phages of the same cluster. NKF was select due to lack of consistency in suggested proteins at 2020-01-27 23:24:19.0
sgconger changed starterator analysis to SS at 2020-01-27 23:24:19.0

Gene Number: 2
dcedwards Added HHPRED Evidence Accession: 6N7R_A Description: Pre-mRNA-splicing factor 8, Pre-mRNA-splicing factor; pre-mRNA splicing, spliceosome, E complex; 3.2A {Saccharomyces cerevisiae (strain ATCC 204508 / S288c)} Query Range: (46-157) Target Range: (189-291) at 2020-05-06 02:18:44.0
dcedwards changed the start site to 427 at 2020-05-05 23:13:19.0
dcedwards changed the start site to 433 at 2020-05-05 23:13:12.0
dcedwards Added HHPRED Evidence Accession: 6N7R_A Description: Pre-mRNA-splicing factor 8, Pre-mRNA-splicing factor; pre-mRNA splicing, spliceosome, E complex; 3.2A {Saccharomyces cerevisiae (strain ATCC 204508 / S288c)} Query Range: (46-157) Target Range: (189-291) at 2020-05-04 20:54:21.0
dcedwards Added Phages DB Evidence Phage Name: Hedwig Function: HNH endonuclease domain protein at 2020-05-04 20:53:53.0
dcedwards Removed Phages DB Evidence Phage Name: Namago_Draft Function: function unknown at 2020-05-04 20:53:53.0
dcedwards Added Phages DB Evidence Phage Name: Namago_Draft Function: function unknown at 2020-05-04 20:44:51.0
skyler Removed Phages DB Evidence Phage Name: Hedwig Function: HNH endonuclease domain protein at 2020-01-27 06:16:03.0
skyler Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-27 06:16:03.0
skyler changed the gene function to NKF at 2020-01-27 06:16:03.0
cebutler Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 16:43:48.0
cebutler Added Phages DB Evidence Phage Name: Bumble_Draft Function: function unknown at 2020-01-22 16:43:48.0
cebutler changed the coding capacity to no at 2020-01-22 16:43:32.0
cebutler changed starterator analysis to NA at 2020-01-22 16:43:32.0
cebutler changed note to The PECAAN starterator does not match up with the phagesdb starterator.
There is a 23% chance that this is a tape measure protein and a 23% chance that this is a hnh endonuclease. at 2020-01-22 16:17:44.0
cebutler changed starterator analysis to SS at 2020-01-22 16:16:29.0
cebutler changed starterator analysis to NI at 2020-01-22 16:16:15.0
cebutler Added Phages DB Evidence Phage Name: Hedwig Function: HNH endonuclease domain protein at 2020-01-22 16:16:05.0
cebutler Added HHPRED Evidence Accession: 5ZWN_Q Description: U1 small nuclear ribonucleoprotein 70; spliceosme, assemply, pre-B complex, U1; 3.3A {Saccharomyces cerevisiae S288c} Query Range: (46-157) Target Range: (189-291) at 2020-01-22 16:16:05.0
cebutler changed the start site to 427 at 2020-01-22 16:14:16.0
cebutler changed note to The PECAAN starterator does not match up with the phagesdb starterator. at 2020-01-22 16:08:59.0
cebutler changed synteny to There is a multitude of reasons why the function is still unknown. at 2020-01-22 16:08:59.0
cebutler changed starterator analysis to NA at 2020-01-22 16:08:59.0
cebutler changed the coding capacity to yes at 2020-01-18 20:14:57.0
cebutler changed the start site to 427 at 2020-01-18 20:13:10.0
cebutler changed the gene function to UNK at 2020-01-18 19:51:24.0

Gene Number: 3
dcedwards Added HHPRED Evidence Accession: 4YTL_A Description: KOW2-KOW3 domains of Spt5; Transcription, Spt5, RNA processing, Transcription; HET: MSE, SO4, GOL; 1.601A {Saccharomyces cerevisiae (strain ATCC 204508 / S288c)} Query Range: (17-68) Target Range: (11-59) at 2020-05-06 02:53:50.0
dcedwards Added HHPRED Evidence Accession: 4YTL_A Description: KOW2-KOW3 domains of Spt5; Transcription, Spt5, RNA processing, Transcription; HET: MSE, SO4, GOL; 1.601A {Saccharomyces cerevisiae (strain ATCC 204508 / S288c)} Query Range: (17-68) Target Range: (11-59) at 2020-05-05 23:54:33.0
dcedwards Added Phages DB Evidence Phage Name: Dewdrop Function: function unknown at 2020-05-04 20:45:19.0
faith changed synteny to This gene is not well conserved in EG phages. Previous and subsequent genes are also not well conserved. at 2020-01-24 02:30:17.0
skyler Added Phages DB Evidence Phage Name: Dewdrop Function: function unknown at 2020-01-22 15:46:38.0
skyler Added NCBI BLAST Evidence Accession: OLE56890 Query Range: (50-104) Target Range: (428-483) at 2020-01-22 15:46:38.0
skyler Added HHPRED Evidence Accession: 2YTX_A Description: Cold shock domain-containing protein E1; CELL-FREE PROTEIN SYNTHESIS, BETA-BARREL, TRANSLATIONAL; NMR {Homo sapiens} Query Range: (33-71) Target Range: (21-67) at 2020-01-22 15:46:38.0
skyler changed note to May be related to withstanding or recovering from damage or stress. Similar to a cold shock protein in Homo sapiens on HHpred. Similar to rtcb-like protein on Phagesdb Function Frequency. at 2020-01-18 20:18:36.0
skyler changed note to May be related to phage withstanding or recovering from damage. Similar to a cold shock protein in Homo sapiens on HHpred. Similar to rtcb-like protein on Phagesdb Function Fequency. at 2020-01-18 20:17:07.0
skyler changed the coding capacity to yes at 2020-01-18 20:17:07.0
skyler changed starterator analysis to SS at 2020-01-18 20:17:07.0
skyler changed note to May be related to phage withstanding or recovering from damage. Similar to a cold shock protein in homosapiens on HHpred. Similar to rtcb-like protein on Phagesdb Function Fequency. at 2020-01-18 19:08:56.0
skyler changed synteny to A variety of different proteins are similar: many of which are unknown. at 2020-01-18 19:08:56.0
rebbabcock1 changed the gene function to NKF at 2020-01-18 18:56:06.0

Gene Number: 4
faith changed the coding capacity to yes at 2020-05-06 02:06:58.0
dcedwards Added HHPRED Evidence Accession: PF01155.19 Description: HypA ; Hydrogenase/urease nickel incorporation, metallochaperone, hypA Query Range: (8-49) Target Range: (59-94) at 2020-05-06 00:12:01.0
dcedwards Added NCBI BLAST Evidence Accession: WP_159600049 Query Range: (5-67) Target Range: (11-73) at 2020-05-06 00:02:41.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-05 23:55:24.0
dcedwards changed the start site to 1338 at 2020-05-05 23:44:07.0
dcedwards Added HHPRED Evidence Accession: PF14616.6 Description: DUF4451 ; Domain of unknown function (DUF4451) Query Range: (27-58) Target Range: (7-24) at 2020-05-04 21:45:15.0
dcedwards Added NCBI BLAST Evidence Accession: QIQ63588 Query Range: (1-81) Target Range: (36-110) at 2020-05-04 21:01:15.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-04 20:46:50.0
faith changed note to Minor tail protein function frequency was 40%, domain of unknown function probability was 45.7%, blast pulled up hypothetical protein. HHPred first hit was domain of unknown function, 47%. HHPred second hit was DNA-binding cysteine-rich domain of male-specific lethal 2 and related proteins 35% and the third hit was PR domain zinc finger protein 31%. at 2020-01-24 02:33:15.0
faith changed synteny to Gene is not well conserved in cluster EG. Previous and subsequent genes are also not well conserved closely related phages. at 2020-01-24 02:33:15.0
mcrew99 Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-22 15:32:23.0
mcrew99 Removed Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-22 15:32:23.0
mcrew99 changed note to Minor tail protein function frequency was 40%, domain of unknown function probability was 45.7%, blast pulled up hypothetical protein. at 2020-01-22 15:32:23.0
mcrew99 changed the coding capacity to yes at 2020-01-22 15:32:23.0
mcrew99 changed synteny to HHPred first hit was domain of unknown function, 47%. HHPred second hit was DNA-binding cysteine-rich domain of male-specific lethal 2 and related proteins 35% and the third hit was PR domain zinc finger protein 31%. at 2020-01-22 15:32:23.0
sgconger Added HHPRED Evidence Accession: PF14616.6 Description: DUF4451 ; Domain of unknown function (DUF4451) Query Range: (27-58) Target Range: (7-24) at 2020-01-22 15:18:31.0
sgconger changed starterator analysis to SS at 2020-01-22 15:18:01.0
sgconger Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-18 21:57:36.0
sgconger Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-18 21:57:36.0
sgconger Added Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-18 21:57:36.0
sgconger changed the gene function to NKF at 2020-01-18 21:57:36.0
sgconger changed synteny to NKF at 2020-01-18 21:57:36.0

Gene Number: 5
dcedwards Added HHPRED Evidence Accession: PF00085.20 Description: Thioredoxin ; Thioredoxin Query Range: (15-31) Target Range: (21-37) at 2020-05-06 02:54:19.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03520 Query Range: (9-49) Target Range: (11-51) at 2020-05-04 20:55:24.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-04 20:47:11.0
dcedwards Added HHPRED Evidence Accession: PF11009.8 Description: DUF2847 ; Protein of unknown function (DUF2847) Query Range: (15-30) Target Range: (21-36) at 2020-05-04 20:47:11.0
faith changed synteny to This gene doesn’t seem to appear on any other of the closely related phages. at 2020-01-24 02:33:28.0
mcrew99 changed the gene function to NKF at 2020-01-18 21:41:41.0
mcrew99 changed the gene function to thioredoxin at 2020-01-18 21:08:26.0
mcrew99 changed note to No data available in function frequency percentage. Blast gave hypothetical protein as an option. Top hit on HHPred was Thioredoxin as a possible description with probability of 98.5. at 2020-01-18 21:03:05.0
mcrew99 changed the coding capacity to yes at 2020-01-18 21:03:05.0
mcrew99 changed synteny to This gene doesn’t seem to appear on any other of the closely related phages. Possibly hypothetical protein or thioredoxin. at 2020-01-18 21:03:05.0
mcrew99 changed starterator analysis to SS at 2020-01-18 21:03:05.0
mcrew99 changed synteny to This gene doesn’t seem to appear on any other of the closely related phages. at 2020-01-18 20:09:40.0
mcrew99 changed the gene function to NKF at 2020-01-18 19:50:16.0
mcrew99 changed synteny to Squash, a closely related phage, also has a gene 5 which is similar, but this gene also has unknown function. at 2020-01-18 19:50:16.0

Gene Number: 6
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-06 02:19:57.0
dcedwards Added HHPRED Evidence Accession: PF14599.6 Description: zinc_ribbon_6 ; Zinc-ribbon Query Range: (40-79) Target Range: (7-37) at 2020-05-06 02:19:57.0
dcedwards Added HHPRED Evidence Accession: PF14599.6 Description: zinc_ribbon_6 ; Zinc-ribbon Query Range: (40-79) Target Range: (7-37) at 2020-05-04 20:59:43.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-04 20:47:29.0
mcrew99 Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-29 15:42:13.0
mcrew99 Added NCBI BLAST Evidence Accession: AYB70114 Query Range: (7-63) Target Range: (1-57) at 2020-01-29 15:42:13.0
mcrew99 Added HHPRED Evidence Accession: PF13408.6 Description: Zn_ribbon_recom ; Recombinase zinc beta ribbon domain Query Range: (72-83) Target Range: (6-17) at 2020-01-29 15:42:13.0
stephaniegarcia changed note to Hpred has a 59.15% for transcription factors ll B, 57.95% Transcription initiation factor but phamerator states it could be a histidine nucleotide binding protein. at 2020-01-24 03:37:57.0
stephaniegarcia changed the coding capacity to yes at 2020-01-24 03:37:57.0
stephaniegarcia changed synteny to The information did not provided did not show a definitive answer for this protein. at 2020-01-24 03:37:57.0
stephaniegarcia changed the start site to 1765 at 2020-01-24 03:36:34.0
stephaniegarcia changed the start site to 1747 at 2020-01-24 03:36:28.0
faith changed note to HHpred gave a top hit for a prophage protein for 96% or could be zinc-ribbon (78%). The information presented did not have one definitive answer ranging from a hypothetical protein, prophage protein, membrane protein and zinc ribbon. at 2020-01-24 02:37:11.0
faith changed synteny to Gene does not appear to be well conserved in cluster EG. Squash gene 5 is in the same pham, but it is of unknown function there too. at 2020-01-24 02:37:11.0
mcrew99 changed note to HHpred gave a top hit for a prophage protein for 96% or could be zinc-ribbon (78%). at 2020-01-22 15:45:38.0
joannag changed the coding capacity to yes at 2020-01-22 15:43:07.0
joannag Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 15:42:28.0
joannag Added NCBI BLAST Evidence Accession: AWN04624 Query Range: (1-78) Target Range: (1-74) at 2020-01-22 15:42:28.0
joannag Added HHPRED Evidence Accession: PF14599.6 Description: zinc_ribbon_6 ; Zinc-ribbon Query Range: (34-73) Target Range: (7-37) at 2020-01-22 15:42:28.0
dcedwards changed starterator analysis to SS at 2020-01-22 15:08:35.0
stephaniegarcia changed the gene function to NKF at 2020-01-18 19:37:54.0
stephaniegarcia changed the gene function to NFK at 2020-01-18 19:37:18.0
stephaniegarcia changed the gene function to membrane protein at 2020-01-18 19:20:11.0
stephaniegarcia changed note to HHpred has no match nor do the others have a definitive answer, phamerator has it labeled as a membrane protein which we will go with. at 2020-01-18 19:20:11.0
stephaniegarcia changed the gene function to UNK at 2020-01-18 19:15:09.0
stephaniegarcia changed note to HHpred has no match nor do the others have a definitive answer. at 2020-01-18 19:15:09.0
stephaniegarcia changed synteny to The information presented did not have one definitive answer ranging from a hypothetical protein, prophage protein, membrane protein and zinc ribbon. at 2020-01-18 19:15:09.0
stephaniegarcia changed the start site to 1747 at 2020-01-18 18:55:39.0

Gene Number: 7
dcedwards Added HHPRED Evidence Accession: PF07874.11 Description: DUF1660 ; Prophage protein (DUF1660) Query Range: (5-43) Target Range: (1-30) at 2020-05-06 00:12:41.0
dcedwards Added Phages DB Evidence Phage Name: Hendrix Function: function unknown at 2020-05-04 21:02:10.0
faith changed note to The evidence is Hendrix, Anakin and many more with having multiple that are similar and have an unknown function. The gene has an unknown function because in PECAAN it shows a 50% frequency and the subclusters are not closely related. In the website’s HHpred (prophage) and Blast (hypothetical protein) shows a different kind of protein. at 2020-01-24 02:38:22.0
faith changed synteny to gene is not well conserved within cluster EG. Previous and subsequent genes are unknown. at 2020-01-24 02:38:22.0
joannag Added Phages DB Evidence Phage Name: Hendrix Function: function unknown at 2020-01-22 16:04:08.0
joannag Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 16:04:08.0
joannag changed note to The evidence is Hendrix, Anakin and many more with having multiple that are similar and have an unknown function. at 2020-01-22 16:04:08.0
joannag Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 15:41:42.0
joannag Removed Phages DB Evidence Phage Name: Hendrix Function: function unknown at 2020-01-22 15:41:42.0
j0ce1yn Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 15:41:24.0
j0ce1yn Removed Phages DB Evidence Phage Name: Karate_Draft Function: function unknown at 2020-01-22 15:41:24.0
j0ce1yn Removed Phages DB Evidence Phage Name: Rie18_Draft Function: function unknown at 2020-01-22 15:41:24.0
j0ce1yn Removed Phages DB Evidence Phage Name: Hiddenleaf Function: function unknown at 2020-01-22 15:41:24.0
j0ce1yn Removed Phages DB Evidence Phage Name: Chivey_Draft Function: function unknown at 2020-01-22 15:41:24.0
j0ce1yn Removed Phages DB Evidence Phage Name: Aesir_Draft Function: function unknown at 2020-01-22 15:41:24.0
j0ce1yn Removed Phages DB Evidence Phage Name: Anamika Function: function unknown at 2020-01-22 15:41:24.0
j0ce1yn Removed Phages DB Evidence Phage Name: AnnaSerena Function: function unknown at 2020-01-22 15:41:24.0
j0ce1yn Removed Phages DB Evidence Phage Name: Anakin Function: function unknown at 2020-01-22 15:41:24.0
j0ce1yn Removed NCBI BLAST Evidence Accession: OGG15931 Query Range: (34-52) Target Range: (234-255) at 2020-01-22 15:41:24.0
j0ce1yn changed the coding capacity to yes at 2020-01-22 15:37:50.0
j0ce1yn changed the start site to 1908 at 2020-01-22 15:32:33.0
j0ce1yn Added NCBI BLAST Evidence Accession: AWN07710 Query Range: (2-40) Target Range: (7-43) at 2020-01-22 15:30:46.0
j0ce1yn Added NCBI BLAST Evidence Accession: OGG15931 Query Range: (34-52) Target Range: (234-255) at 2020-01-22 15:30:46.0
j0ce1yn Added HHPRED Evidence Accession: PF06353.12 Description: DUF1062 ; Protein of unknown function (DUF1062) Query Range: (33-41) Target Range: (12-20) at 2020-01-22 15:30:00.0
joannag Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-21 15:39:20.0
joannag Added Phages DB Evidence Phage Name: Hendrix Function: function unknown at 2020-01-21 15:39:20.0
joannag Added Phages DB Evidence Phage Name: Karate_Draft Function: function unknown at 2020-01-21 15:39:20.0
joannag Added Phages DB Evidence Phage Name: Chivey_Draft Function: function unknown at 2020-01-21 15:39:20.0
joannag Added Phages DB Evidence Phage Name: Aesir_Draft Function: function unknown at 2020-01-21 15:39:20.0
joannag Added Phages DB Evidence Phage Name: Hiddenleaf Function: function unknown at 2020-01-21 15:39:20.0
joannag Added Phages DB Evidence Phage Name: Rie18_Draft Function: function unknown at 2020-01-21 15:39:20.0
joannag Added Phages DB Evidence Phage Name: Anakin Function: function unknown at 2020-01-21 15:39:20.0
joannag Added Phages DB Evidence Phage Name: Anamika Function: function unknown at 2020-01-21 15:39:20.0
joannag Added Phages DB Evidence Phage Name: AnnaSerena Function: function unknown at 2020-01-21 15:39:20.0
joannag changed synteny to The gene has an unknown function because in PECAAN it shows a 50% frequency and the subclusters are not closely related. In the website’s HHpred (prophage) and Blast (hypothetical protein) shows a different kind of protein. at 2020-01-21 15:39:20.0
joannag Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-21 04:27:14.0
joannag Added Phages DB Evidence Phage Name: Hendrix Function: function unknown at 2020-01-21 04:27:14.0
joannag Added Phages DB Evidence Phage Name: Karate_Draft Function: function unknown at 2020-01-21 04:27:14.0
joannag Added Phages DB Evidence Phage Name: Aesir_Draft Function: function unknown at 2020-01-21 04:27:14.0
joannag Added Phages DB Evidence Phage Name: Chivey_Draft Function: function unknown at 2020-01-21 04:27:14.0
joannag Added Phages DB Evidence Phage Name: Hiddenleaf Function: function unknown at 2020-01-21 04:27:14.0
joannag Added Phages DB Evidence Phage Name: Rie18_Draft Function: function unknown at 2020-01-21 04:27:14.0
joannag Added Phages DB Evidence Phage Name: Anakin Function: function unknown at 2020-01-21 04:27:14.0
joannag Added Phages DB Evidence Phage Name: Anamika Function: function unknown at 2020-01-21 04:27:14.0
joannag Added Phages DB Evidence Phage Name: AnnaSerena Function: function unknown at 2020-01-21 04:27:14.0
joannag changed the gene function to NKF at 2020-01-21 04:27:14.0
joannag changed starterator analysis to SS at 2020-01-21 04:27:14.0

Gene Number: 8
dcedwards Added Phages DB Evidence Phage Name: Percival Function: function unknown at 2020-05-06 02:20:20.0
dcedwards Added HHPRED Evidence Accession: PF01724.16 Description: DUF29 ; Domain of unknown function DUF29 Query Range: (8-20) Target Range: (118-130) at 2020-05-06 00:13:06.0
dcedwards Added Phages DB Evidence Phage Name: Percival Function: function unknown at 2020-05-04 21:02:29.0
faith changed synteny to gene is not well conserved within cluster EG. Previous gene function is unknown, subsequent gene function appears to be a histadine triad nucleotide binding protein. at 2020-01-24 02:42:28.0
faith changed note to NCBI did not find a close enough match to another gene from any of the known phages in the same class. Phamerator also found no matches to any other phages and classified this gene as an orpham. HHPred also found no know matches to any other genes other than hypothetical protein. at 2020-01-24 02:39:12.0
faith changed synteny to gene is not well conserved within cluster EG. Previous and subsequent gene functions are unknown. at 2020-01-24 02:39:12.0
joannag Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 15:43:40.0
joannag Added NCBI BLAST Evidence Accession: WP_065823720 Query Range: (21-65) Target Range: (2702-2749) at 2020-01-22 15:43:40.0
joannag Added HHPRED Evidence Accession: PF01724.16 Description: DUF29 ; Domain of unknown function DUF29 Query Range: (8-20) Target Range: (118-130) at 2020-01-22 15:43:40.0
j0ce1yn changed synteny to NCBI did not find a close enough match to another gene from any of the known phages in the same class. Phamerator also found no matches to any other phages and classified this gene as an orpham. HHPred also found no know matches to any other genes other than hypothetical protein. at 2020-01-20 06:16:18.0
j0ce1yn changed the gene function to NKF at 2020-01-18 22:07:22.0
j0ce1yn changed the coding capacity to yes at 2020-01-18 20:37:36.0
j0ce1yn changed starterator analysis to SS at 2020-01-18 20:37:36.0

Gene Number: 9
dcedwards Added CDD Evidence Accession: cd01277 Query Range: (3-105) Target Range: (1-103) at 2020-05-06 00:48:12.0
dcedwards Added Phages DB Evidence Phage Name: Tempo Function: histidine triad nucleotide binding protein at 2020-05-06 00:13:22.0
dcedwards Added HHPRED Evidence Accession: 1Y23_D Description: Histidine triad protein; HIT protein PKCI-1 ; 2.3A {Bacillus subtilis} SCOP: d.13.1.1 Query Range: (1-116) Target Range: (4-120) at 2020-05-06 00:13:22.0
faith changed the coding capacity to yes at 2020-05-05 22:53:42.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: histidine triad nucleotide binding protein at 2020-05-04 21:03:21.0
dcedwards Removed Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-05-04 21:03:21.0
dcedwards Added CDD Evidence Accession: cd01277 Query Range: (3-105) Target Range: (1-103) at 2020-05-04 21:03:21.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03524 Query Range: (1-120) Target Range: (1-121) at 2020-05-04 21:03:21.0
sam_munoz607 changed starterator analysis to NA at 2020-01-27 02:22:26.0
sam_munoz607 Added Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-27 02:20:26.0
sam_munoz607 Added HHPRED Evidence Accession: 3N1S_J Description: HIT-like protein hinT; histidine triad nucleotide binding protein; HET: 5GP, EDO; 1.45A {Escherichia coli} Query Range: (1-114) Target Range: (2-116) at 2020-01-27 02:20:26.0
sam_munoz607 changed the coding capacity to no at 2020-01-27 02:20:26.0
faith changed synteny to Gene is not well conserved within EG, but it has an abundance of members in its pham report. They are often reported at histidine triad nucleotide binding proteins. Previous and subsequent gene functions are unknown. at 2020-01-24 02:41:35.0
alonnndramtz changed the gene function to histidine triad nucleotide binding protein at 2020-01-22 22:39:20.0
alonnndramtz changed note to On HHpred, fizzles gene 9 hits with histidine coding comparisons mentioning also “automated matches”.
On BLAST, fizzles gene 9 first two matches are 100% histidine coding. Also mentions family protein and domain containing proteins. at 2020-01-22 22:39:20.0
alonnndramtz changed the coding capacity to yes at 2020-01-22 22:39:20.0
alonnndramtz changed starterator analysis to SS at 2020-01-22 22:39:20.0
j0ce1yn changed the start site to 2470 at 2020-01-18 19:34:18.0

Gene Number: 10
dcedwards Added HHPRED Evidence Accession: PF07874.11 Description: DUF1660 ; Prophage protein (DUF1660) Query Range: (7-43) Target Range: (2-30) at 2020-05-06 02:20:41.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-06 01:38:58.0
dcedwards Added HHPRED Evidence Accession: PF07874.11 Description: DUF1660 ; Prophage protein (DUF1660) Query Range: (7-43) Target Range: (2-30) at 2020-05-06 00:13:41.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-04 21:05:05.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-04 21:04:04.0
dcedwards Added HHPRED Evidence Accession: PF07874.11 Description: DUF1660 ; Prophage protein (DUF1660) Query Range: (7-43) Target Range: (2-30) at 2020-05-04 21:04:04.0
faith changed starterator analysis to SS at 2020-01-24 02:44:27.0
faith changed the coding capacity to yes at 2020-01-24 02:44:11.0
sam_munoz607 changed the coding capacity to no at 2020-01-18 20:30:31.0
sam_munoz607 changed synteny to Does not seem to be similar to genes of the closest related phages. at 2020-01-18 20:30:31.0
sam_munoz607 changed the gene function to NKF at 2020-01-18 19:12:13.0
sam_munoz607 changed note to PhagesDB contained no starterator data. Blastp did not find any significant similarities. at 2020-01-18 19:12:13.0

Gene Number: 11
dcedwards Added NCBI BLAST Evidence Accession: AWN04629 Query Range: (1-177) Target Range: (1-172) at 2020-05-06 02:21:33.0
dcedwards Added NCBI BLAST Evidence Accession: QAY12537 Query Range: (1-81) Target Range: (1-75) at 2020-05-06 02:21:33.0
dcedwards Removed Phages DB Evidence Phage Name: Bipolarisk Function: nicotinate ribosyltransferase at 2020-05-06 01:10:12.0
dcedwards Added Phages DB Evidence Phage Name: Bipolarisk Function: nicotinate ribosyltransferase at 2020-05-06 01:09:20.0
dcedwards Added NCBI BLAST Evidence Accession: AWN04629 Query Range: (1-177) Target Range: (1-172) at 2020-05-06 01:09:20.0
dcedwards Removed NCBI BLAST Evidence Accession: AWN04629 Query Range: (1-177) Target Range: (1-172) at 2020-05-06 01:09:20.0
dcedwards Added HHPRED Evidence Accession: 4QTN_C Description: Nicotinamide riboside transporter PnuC; membrane transport, vitamin transport, Nicotinamide; HET: BOG, NNR; 2.8A {Neisseria mucosa ATCC 25996} Query Range: (5-83) Target Range: (41-114) at 2020-05-06 01:09:20.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-04 21:18:19.0
dcedwards Added HHPRED Evidence Accession: PF04973.12 Description: NMN_transporter ; Nicotinamide mononucleotide transporter Query Range: (5-84) Target Range: (2-75) at 2020-05-04 21:18:19.0
dcedwards Added HHPRED Evidence Accession: 4QTN_C Description: Nicotinamide riboside transporter PnuC; membrane transport, vitamin transport, Nicotinamide; HET: BOG, NNR; 2.8A {Neisseria mucosa ATCC 25996} Query Range: (5-83) Target Range: (41-114) at 2020-05-04 21:18:19.0
dcedwards Removed HHPRED Evidence Accession: PF10688.9 Description: Imp-YgjV ; Bacterial inner membrane protein Query Range: (4-79) Target Range: (98-165) at 2020-05-04 21:18:19.0
dcedwards changed the gene function to PnuC-like Nicotinamide riboside transporter at 2020-05-04 21:18:19.0
dcedwards Added HHPRED Evidence Accession: PF10688.9 Description: Imp-YgjV ; Bacterial inner membrane protein Query Range: (4-79) Target Range: (98-165) at 2020-05-04 21:07:30.0
dcedwards Removed HHPRED Evidence Accession: PF04973.12 Description: NMN_transporter ; Nicotinamide mononucleotide transporter Query Range: (5-84) Target Range: (2-75) at 2020-05-04 21:07:30.0
dcedwards Added TmHmm evidence at 2020-05-04 21:07:30.0
dcedwards Added TOPCONS evidence at 2020-05-04 21:07:30.0
dcedwards changed the gene function to membrane protein at 2020-01-27 15:21:22.0
sam_munoz607 Added HHPRED Evidence Accession: PF04973.12 Description: NMN_transporter ; Nicotinamide mononucleotide transporter Query Range: (5-84) Target Range: (2-75) at 2020-01-22 15:24:59.0
sam_munoz607 changed the coding capacity to yes at 2020-01-22 15:24:59.0
sam_munoz607 changed starterator analysis to SS at 2020-01-22 15:24:59.0
chloeogrady changed note to On the NCBI Blast tool on PECAAN, the identity percentage (46.7%) is much lower than the percentage I am getting on the NCBI website (62.9%). I have refreshed the programs several times, and it continues to produce the same data. at 2020-01-18 20:10:00.0
chloeogrady changed synteny to The positioning of the gene and the similarities to other phages justify that this is a membrane protein. HHpred and NCBI Blast have provided proof that these findings are correct. at 2020-01-18 19:14:23.0
chloeogrady changed the gene function to Membrane Protein at 2020-01-18 19:08:50.0
chloeogrady changed the gene function to membrane protein at 2020-01-18 19:08:34.0
chloeogrady changed note to On the NCBI Blast tool on PECAAN, the identity percentage is much lower than the percentage I am getting on the NCBI website. I have refreshed the programs several times, and it continues to produce the same data. at 2020-01-18 19:08:34.0
chloeogrady Added NCBI BLAST Evidence Accession: AWN04629 Query Range: (1-177) Target Range: (1-172) at 2020-01-18 19:01:19.0
chloeogrady Added Phages DB Evidence Phage Name: Squash Function: membrane protein at 2020-01-18 18:32:05.0
chloeogrady changed the start site to 3173 at 2020-01-18 18:22:57.0

Gene Number: 12
dcedwards Added CDD Evidence Accession: pfam06908 Query Range: (8-158) Target Range: (1-165) at 2020-05-06 02:22:13.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: DprA-like DNA processing chain A at 2020-05-06 01:28:30.0
dcedwards Added HHPRED Evidence Accession: 3UQZ_A Description: DNA processing protein DprA; SAM and Rossmann Fold, DNA; HET: SO4; 2.7A {Streptococcus pneumoniae} Query Range: (4-172) Target Range: (105-269) at 2020-05-06 01:27:08.0
dcedwards changed note to The NCBI Blastp and PECAAN showed around a 72 and 75% match with three phages that had the function of ssDNA binding protein. High match with DprA-like DNA processing chain A at 2020-05-04 21:23:47.0
dcedwards changed synteny to Mashley and Hyperion have a ssDNA binding protein that follows a membrane protein. Rudy Ralph has high match to DprA-like DNA processing chain A. at 2020-05-04 21:23:47.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: DprA-like DNA processing chain A at 2020-05-04 21:20:49.0
dcedwards Removed Phages DB Evidence Phage Name: Squash Function: ssDNA binding protein at 2020-05-04 21:20:49.0
dcedwards Added HHPRED Evidence Accession: 3UQZ_A Description: DNA processing protein DprA; SAM and Rossmann Fold, DNA; HET: SO4; 2.7A {Streptococcus pneumoniae} Query Range: (4-172) Target Range: (105-269) at 2020-05-04 21:20:49.0
dcedwards changed the gene function to DprA-like DNA processing chain A at 2020-05-04 21:20:49.0
dcedwards changed the gene function to ssDNA binding protein, ERF family at 2020-05-04 20:32:19.0
faith changed note to The NCBI Blastp and PECAAN showed around a 72 and 75% match with three phages that had the function of ssDNA binding protein. at 2020-01-24 02:51:21.0
faith changed synteny to Mashley and Hyperion have a ssDNA binding protein that follows a membrane protein. at 2020-01-24 02:51:21.0
aequirl Removed Phages DB Evidence Phage Name: Mashley Function: ssDNA binding protein at 2020-01-22 17:52:35.0
aequirl Removed Phages DB Evidence Phage Name: Hyperion Function: ssDNA binding protein at 2020-01-22 17:52:35.0
aequirl Removed NCBI BLAST Evidence Accession: QED11824 Query Range: (5-173) Target Range: (5-173) at 2020-01-22 15:41:07.0
aequirl Removed NCBI BLAST Evidence Accession: AWN03526 Query Range: (5-173) Target Range: (5-173) at 2020-01-22 15:41:07.0
kristinsefcik Added Phages DB Evidence Phage Name: Squash Function: ssDNA binding protein at 2020-01-22 15:29:25.0
kristinsefcik Added Phages DB Evidence Phage Name: Mashley Function: ssDNA binding protein at 2020-01-22 15:29:25.0
kristinsefcik Added Phages DB Evidence Phage Name: Hyperion Function: ssDNA binding protein at 2020-01-22 15:29:25.0
kristinsefcik Added NCBI BLAST Evidence Accession: AWN04631 Query Range: (5-172) Target Range: (5-172) at 2020-01-22 15:29:25.0
kristinsefcik Added NCBI BLAST Evidence Accession: QED11824 Query Range: (5-173) Target Range: (5-173) at 2020-01-22 15:29:25.0
kristinsefcik Added NCBI BLAST Evidence Accession: AWN03526 Query Range: (5-173) Target Range: (5-173) at 2020-01-22 15:29:25.0
aequirl changed starterator analysis to SS at 2020-01-18 23:40:09.0
aequirl changed the coding capacity to yes at 2020-01-18 20:18:21.0
aequirl changed the gene function to ssDNA binding protein at 2020-01-18 19:57:20.0
aequirl changed synteny to The NCBI Blastp and PECAAN showed around a 72 and 75% match with three phages that had the function of ssDNA binding protein. at 2020-01-18 19:57:20.0
aequirl changed the gene function to NKF at 2020-01-18 18:46:21.0

Gene Number: 13
dcedwards Added HHPRED Evidence Accession: PF17840.1 Description: Tugs ; Tethering Ubl4a to BAGS domain Query Range: (18-42) Target Range: (1-25) at 2020-05-04 21:31:28.0
dcedwards Added Phages DB Evidence Phage Name: L5 Function: Ribonucleotide reductase at 2020-05-04 21:31:13.0
dcedwards changed the gene function to NKF at 2020-05-04 21:31:13.0
dcedwards changed the gene function to ribonucleotide reductase at 2020-01-27 15:22:12.0
faith changed note to The evidence is L5, XianYue, and Babyray with all three being similar to fizzles and having ribonucleotide reductase as their functions. The frequency % for ribonucleotide reductase is 67% for subcluster A2 and 33% for subcluster A3. at 2020-01-24 02:52:35.0
faith changed the coding capacity to yes at 2020-01-24 02:52:35.0
faith changed synteny to I believe that is its function is ribonucleotide reductase because of the graph given it being so similar to the other phages. at 2020-01-24 02:52:35.0
aequirl Removed Phages DB Evidence Phage Name: XianYue Function: ribonucleotide reductase at 2020-01-22 17:41:20.0
aequirl Removed Phages DB Evidence Phage Name: BabyRay Function: ribonucleotide reductase at 2020-01-22 17:41:20.0
aequirl Added NCBI BLAST Evidence Accession: OJU44446 Query Range: (9-79) Target Range: (14-94) at 2020-01-22 17:41:20.0
aequirl changed the coding capacity to no at 2020-01-22 17:41:20.0
kristinsefcik changed synteny to I believe that is its function is ribonucleotide reductase because of the graph given it being so similar to the other phages. The frequency % for ribonucleotide reductase is 67% for subcluster A2 and 33% for subcluster A3. at 2020-01-18 20:34:52.0
kristinsefcik Added Phages DB Evidence Phage Name: L5 Function: Ribonucleotide reductase at 2020-01-18 19:12:40.0
kristinsefcik Added Phages DB Evidence Phage Name: XianYue Function: ribonucleotide reductase at 2020-01-18 19:12:40.0
kristinsefcik Added Phages DB Evidence Phage Name: BabyRay Function: ribonucleotide reductase at 2020-01-18 19:12:40.0
kristinsefcik changed the gene function to Ribonucleotide reductase at 2020-01-18 19:12:40.0
kristinsefcik changed note to The evidence is L5, XianYue, and Babyray with all three being similar to fizzles and having ribonucleotide reductase as their functions. at 2020-01-18 19:12:40.0
kristinsefcik changed synteny to I believe that is its function is ribonucleotide reductase because of the graph given it being so similar to the other phages. at 2020-01-18 19:12:40.0
kristinsefcik changed starterator analysis to SS at 2020-01-18 19:12:40.0

Gene Number: 14
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-06 02:22:44.0
dcedwards Added HHPRED Evidence Accession: 2HYJ_A Description: Putative tetR-family transcriptional regulator; tetR, HTH DNA binding motif; 2.19A {Streptomyces coelicolor} SCOP: a.4.1.9, a.121.1.1 Query Range: (1-51) Target Range: (1-55) at 2020-05-06 02:22:44.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-04 21:34:07.0
dcedwards Added HHPRED Evidence Accession: 2HYJ_A Description: Putative tetR-family transcriptional regulator; tetR, HTH DNA binding motif; 2.19A {Streptomyces coelicolor} SCOP: a.4.1.9, a.121.1.1 Query Range: (1-51) Target Range: (1-55) at 2020-05-04 21:34:07.0
faith Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-24 02:56:18.0
faith Removed Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-24 02:56:18.0
faith Added NCBI BLAST Evidence Accession: AWN04633 Query Range: (1-82) Target Range: (1-82) at 2020-01-24 02:56:18.0
faith changed note to This gene has an unknown function, because it is does not have a strong probability on HHpred or Blastp indicating it’s similarity to one particular protein. at 2020-01-24 02:56:18.0
faith changed the coding capacity to yes at 2020-01-24 02:56:18.0
faith changed synteny to at 2020-01-24 02:56:18.0
kristinsefcik changed starterator analysis to SS at 2020-01-22 15:58:09.0
kristinsefcik Added Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-22 15:43:45.0
gspotz changed the gene function to NKF at 2020-01-18 20:23:18.0
gspotz changed synteny to This gene has an unknown function, because it is does not have a strong probability on HHpred or Blastp indicating it’s similarity to one particular protein. at 2020-01-18 20:23:18.0
gspotz changed the gene function to helix-turn-helix DNA binding domain at 2020-01-18 19:14:58.0
gspotz changed synteny to Both Blastp and HHpred show evidence that gene 14 is a DNA binding protein. at 2020-01-18 19:14:58.0
gspotz changed the gene function to at 2020-01-18 18:52:55.0
gspotz changed synteny to at 2020-01-18 18:52:55.0
gspotz changed the gene function to helix-turn-helix DNA binding domain at 2020-01-18 18:46:45.0
gspotz changed synteny to Both Blastp and HHpred show evidence that it is a DNA binding protein. at 2020-01-18 18:46:45.0

Gene Number: 15
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: helix-turn-helix DNA binding protein at 2020-05-04 21:40:07.0
dcedwards Added HHPRED Evidence Accession: 4FX0_A Description: PROBABLE TRANSCRIPTIONAL REPRESSOR PROTEIN; Helix-turn-helix, Transcriptional repressor, DNA binding; 2.6981A {Mycobacterium tuberculosis} Query Range: (31-107) Target Range: (23-97) at 2020-05-04 21:39:55.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: helix-turn-helix DNA binding protein at 2020-05-04 21:34:42.0
dcedwards Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-05-04 21:34:42.0
gvazquez changed note to The results for the gene on Pecaan and HHpred did not match in chronological order, but based on their percent identity it can be predicted that the function is helix-turn-helix DNA binding domain. NCBI shows 96.61% and HH pred shows 98.53% probability. While it was clear that both had helix-turn-helix domains, the genes themselves had several differences. The top result on Pecaan was found to be the 117th result of HHpred. at 2020-01-22 15:46:51.0
gvazquez changed note to The results for the gene on Pecaan and HHpred did not match in chronological order, but based on their percent identity NCBI shows 96.61% and HH pred shows 98.53% probability. While it was clear that both had helix-turn-helix domains, the genes themselves had several differences. The top result on Pecaan was found to be the 117th result of HHpred. at 2020-01-22 15:45:54.0
tannerjtaylor changed note to The results for the gene on Pecaan and HHpred did not match. While it was clear that both had helix-turn-helix domains, the genes themselves had several differences. The top result on Pecaan was found to be the 117th result of HHpred. This made it difficult to decide what to do. at 2020-01-18 20:49:10.0
tannerjtaylor changed synteny to When compared to other phages, the placement and positioning of the gene shows similarity between it and helix-turn-helices on the other phages. This means that it makes sense for this to be a helix-turn helix as well. at 2020-01-18 20:49:10.0
tannerjtaylor changed the gene function to helix-turn-helix DNA binding domain at 2020-01-18 20:35:28.0
tannerjtaylor changed the coding capacity to yes at 2020-01-18 20:35:28.0
tannerjtaylor changed starterator analysis to SS at 2020-01-18 20:34:57.0
tannerjtaylor Added NCBI BLAST Evidence Accession: AWN03529 Query Range: (1-118) Target Range: (1-118) at 2020-01-18 20:34:43.0
tannerjtaylor Added HHPRED Evidence Accession: PF14502.6 Description: HTH_41 ; Helix-turn-helix domain Query Range: (56-91) Target Range: (1-36) at 2020-01-18 20:34:43.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-18 20:17:32.0
gspotz changed the gene function to at 2020-01-18 19:00:57.0
gspotz changed synteny to at 2020-01-18 19:00:48.0
gspotz changed the gene function to helix-turn-helix DNA binding domain at 2020-01-18 18:56:25.0
gspotz changed synteny to Both Blastp and HHpred show evidence of the gene being a DNA binding protein. at 2020-01-18 18:56:25.0

Gene Number: 16
dcedwards Added HHPRED Evidence Accession: 4LHF_A Description: Regulatory protein cox; helix-turn-helix, DNA binding, VIRAL PROTEIN; 2.401A {Enterobacteria phage P2} Query Range: (3-64) Target Range: (6-68) at 2020-05-06 02:58:08.0
dcedwards Added HHPRED Evidence Accession: 1Z4H_A Description: Tor inhibition protein; winged helix, reverse turn, PROTEIN; NMR {Escherichia coli} Query Range: (1-71) Target Range: (3-66) at 2020-05-06 02:57:44.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: helix-turn-helix DNA binding protein at 2020-05-06 02:24:18.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: helix-turn-helix DNA binding protein at 2020-05-04 21:50:26.0
dcedwards Added HHPRED Evidence Accession: 1Z4H_A Description: Tor inhibition protein; winged helix, reverse turn, PROTEIN; NMR {Escherichia coli} Query Range: (1-71) Target Range: (3-66) at 2020-05-04 21:50:26.0
skyler Added CDD Evidence Accession: pfam12728 Query Range: (8-65) Target Range: (1-50) at 2020-01-27 03:42:16.0
gvazquez Added Phages DB Evidence Phage Name: RubyRalph Function: helix-turn-helix DNA binding domain at 2020-01-18 20:10:53.0
gvazquez Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-18 20:10:53.0
gvazquez changed note to Based on the NCB blast, the function indicates a helix- turn- helix protein at a pecernt identity of 40.91%. HHpred does not indicate a helix turn helix at the beginning but rather at NR 8 with a with propability of 98. 95 %. at 2020-01-18 20:10:53.0
gvazquez changed the coding capacity to yes at 2020-01-18 20:10:53.0
gvazquez changed synteny to Based on the phamerator, rudy Ralph shows a similar protein function at the sequence number 16 with similar with size. They are both at the transcribe forward on the sequence as well. at 2020-01-18 20:10:53.0
tannerjtaylor changed note to On HHpred, the most probable outcome was excisionase at 99.38. However, there are specific instructions about using this term when naming a gene, and required that it instead be called a helix-turn-helix DNA binding domain. Thus, I scrolled to the highest probability of these and used that. at 2020-01-18 19:52:21.0
tannerjtaylor changed synteny to As this protein is in the middle of several unknowns, there is not yet enough information to ellaborate. at 2020-01-18 19:52:21.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-18 18:58:45.0
tannerjtaylor Added HHPRED Evidence Accession: 4LHF_A Description: Regulatory protein cox; helix-turn-helix, DNA binding, VIRAL PROTEIN; 2.401A {Enterobacteria phage P2} Query Range: (3-64) Target Range: (6-68) at 2020-01-18 18:58:45.0
tannerjtaylor changed the gene function to helix-turn-helix DNA binding domain at 2020-01-18 18:58:45.0
tannerjtaylor changed starterator analysis to SS at 2020-01-18 18:58:45.0

Gene Number: 17
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: ribbon-helix-helix DNA binding domain protein at 2020-05-04 21:56:54.0
dcedwards Removed Phages DB Evidence Phage Name: Hyperion Function: DNA binding domain protein at 2020-05-04 21:56:54.0
dcedwards Added HHPRED Evidence Accession: 6QEQ_C Description: Bacterial mobilisation protein (MobC); Accessory factor, DNA BINDING PROTEIN; HET: MSE; 1.9A {Enterococcus faecalis} Query Range: (5-50) Target Range: (3-49) at 2020-05-04 21:56:54.0
dcedwards Added HHPRED Evidence Accession: 1P94_A Description: plasmid partition protein ParG; ribbon-helix-helix, dimer, DNA binding, CELL; NMR {Salmonella enterica} SCOP: a.43.1.3 Query Range: (1-49) Target Range: (15-71) at 2020-05-04 21:56:54.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: DNA binding domain protein at 2020-05-04 21:41:48.0
skyler Added NCBI BLAST Evidence Accession: AWN03531 Query Range: (1-51) Target Range: (1-51) at 2020-01-27 07:13:02.0
gvazquez Added Phages DB Evidence Phage Name: Hyperion Function: DNA binding domain protein at 2020-01-22 16:26:03.0
gvazquez Added HHPRED Evidence Accession: 2BA3_A Description: NikA; DIMER, BACTERIAL CONJUGATION, RELAXASE, DNA; NMR {Plasmid R64} Query Range: (1-48) Target Range: (3-51) at 2020-01-22 16:26:03.0
gvazquez changed note to Based on NCBI Blast there is a percent identity of 58.82% that the function is a DNA binding protein. HH Pred states that at 2020-01-22 16:26:03.0
skyler changed starterator analysis to SS at 2020-01-18 21:36:54.0
skyler changed the gene function to ribbon-helix-helix DNA binding domain at 2020-01-18 21:25:42.0
skyler changed synteny to Phages Squash, Hyperion, and Mashley all have this as their first forward transcribed protein. The closest match on Blastp is a DNA binding domain protein. There are similar proteins that are with ribbon-helix-helix and/or DNA binding domain in their name on HHpred. at 2020-01-18 21:25:42.0
skyler changed the coding capacity to yes at 2020-01-18 20:28:26.0

Gene Number: 18
dcedwards Added HHPRED Evidence Accession: PF14493.6 Description: HTH_40 ; Helix-turn-helix domain Query Range: (56-94) Target Range: (2-39) at 2020-05-06 02:58:41.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: helix-turn-helix DNA binding domain protein at 2020-05-06 02:24:53.0
dcedwards changed the gene function to helix-turn-helix DNA binding domain at 2020-05-04 22:02:08.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: helix-turn-helix DNA binding domain protein at 2020-05-04 22:01:53.0
dcedwards Removed Phages DB Evidence Phage Name: Squash Function: ribbon-helix-helix DNA binding domain protein at 2020-05-04 22:01:53.0
dcedwards Added NCBI BLAST Evidence Accession: QIG59026 Query Range: (1-213) Target Range: (1-214) at 2020-05-04 22:01:53.0
dcedwards Removed NCBI BLAST Evidence Accession: AWN04637 Query Range: (5-213) Target Range: (34-253) at 2020-05-04 22:01:53.0
dcedwards Added HHPRED Evidence Accession: PF14493.6 Description: HTH_40 ; Helix-turn-helix domain Query Range: (56-94) Target Range: (2-39) at 2020-05-04 22:01:53.0
dcedwards changed the gene function to ribbon-helix-helix DNA binding domain at 2020-05-04 21:53:03.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: ribbon-helix-helix DNA binding domain protein at 2020-05-04 21:52:54.0
skyler Added Phages DB Evidence Phage Name: RubyRalph Function: helis-turn-helix DNA binding domain at 2020-01-27 06:22:56.0
skyler Added NCBI BLAST Evidence Accession: AWN04637 Query Range: (5-213) Target Range: (34-253) at 2020-01-27 06:22:56.0
skyler Added HHPRED Evidence Accession: PF14493.6 Description: HTH_40 ; Helix-turn-helix domain Query Range: (56-94) Target Range: (2-39) at 2020-01-27 06:22:56.0
cebutler changed note to The gene is closely related to helix-turn-helix dna-binding domain (52%). The next one that it is most similar to is the capsid decoration protein. at 2020-01-22 16:22:04.0
cebutler changed the coding capacity to yes at 2020-01-22 16:22:04.0
cebutler changed synteny to There are several reasons for why the function is still unknown at 2020-01-22 16:22:04.0
cebutler changed starterator analysis to SS at 2020-01-22 16:22:04.0
rebbabcock1 changed note to The gene is closely related to helix-turn-helix dna-binding domain. at 2020-01-18 19:58:29.0
rebbabcock1 changed the gene function to NKF at 2020-01-18 19:58:00.0
rebbabcock1 changed note to The gene is closely related to helix-turn-helix dna-binding domain protein. at 2020-01-18 19:58:00.0

Gene Number: 19
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-05-06 02:25:10.0
dcedwards Added HHPRED Evidence Accession: PF16572.5 Description: HlyD_D4 ; Long alpha hairpin domain of cation efflux system protein, CusB Query Range: (21-50) Target Range: (5-41) at 2020-05-06 02:25:10.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-05-04 21:53:54.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03620 Query Range: (1-54) Target Range: (1-52) at 2020-05-04 21:53:54.0
dcedwards Removed NCBI BLAST Evidence Accession: AYB70127 Query Range: (5-54) Target Range: (3-52) at 2020-05-04 21:53:54.0
dcedwards Added HHPRED Evidence Accession: 6UMM_J Description: ESX-3 secretion system protein EccE3; ESX, secretion system, type VII;{Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)} Query Range: (10-47) Target Range: (93-130) at 2020-05-04 21:53:54.0
cebutler changed the gene function to NKF at 2020-01-18 20:37:27.0
cebutler changed note to Frequency of a tape measure protein at 100% at 2020-01-18 20:37:27.0
cebutler changed the coding capacity to yes at 2020-01-18 20:18:58.0
cebutler changed synteny to There are a variety of reasons why the function is still unknown at 2020-01-18 20:18:58.0
cebutler changed the gene function to unknown at 2020-01-18 19:11:51.0

Gene Number: 20
dcedwards Added HHPRED Evidence Accession: PF04810.15 Description: zf-Sec23_Sec24 ; Sec23/Sec24 zinc finger Query Range: (4-16) Target Range: (24-36) at 2020-05-06 02:59:06.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-06 02:25:23.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-04 21:54:30.0
dcedwards Added HHPRED Evidence Accession: PF04810.15 Description: zf-Sec23_Sec24 ; Sec23/Sec24 zinc finger Query Range: (4-16) Target Range: (24-36) at 2020-05-04 21:54:30.0
mcrew99 changed note to Could be a hypothetical protein as shown on blast, according to the HHPred hit list, the gene could function in some sort of oxidation-reduction purpose, with 79.26% probability. at 2020-01-26 23:17:31.0
mcrew99 Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-26 22:55:40.0
mcrew99 Removed Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-26 22:55:40.0
mcrew99 changed note to Could be a hypothetical protein as shown at 2020-01-26 22:55:40.0
faith Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-24 03:03:48.0
faith Added NCBI BLAST Evidence Accession: AWN03533 Query Range: (6-58) Target Range: (7-59) at 2020-01-24 03:03:48.0
faith Added HHPRED Evidence Accession: PF04810.15 Description: zf-Sec23_Sec24 ; Sec23/Sec24 zinc finger Query Range: (4-16) Target Range: (24-36) at 2020-01-24 03:03:48.0
faith changed note to Hypothetical protein; function unknown. at 2020-01-24 03:03:48.0
faith changed synteny to Genes within this pham in closely related phages (Mashley, Hyperion, and Squash) are hypothetical proteins as well. at 2020-01-24 03:03:48.0
sgconger changed the gene function to NKF at 2020-01-18 20:33:52.0
sgconger changed note to No data available at 2020-01-18 20:33:52.0
sgconger changed synteny to No data available at 2020-01-18 20:33:52.0
sgconger changed the coding capacity to yes at 2020-01-18 20:30:29.0
sgconger changed starterator analysis to SS at 2020-01-18 20:30:24.0
sgconger changed the gene function to Hypothetical Protein at 2020-01-18 20:28:54.0
sgconger changed synteny to Blastp and NCBI Blast had the high percent identity for Fizzles gene 20 with Hyperion and Mashley, which had the gene identified as a hypothetical protein. at 2020-01-18 20:28:54.0

Gene Number: 21
dcedwards Added HHPRED Evidence Accession: PF16777.5 Description: RHH_7 ; Transcriptional regulator, RHH-like, CopG Query Range: (41-77) Target Range: (5-41) at 2020-05-06 02:26:01.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: ribbon-helix-helix DNA binding domain protein at 2020-05-06 01:38:09.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: ribbon-helix-helix DNA binding domain protein at 2020-05-04 22:14:33.0
dcedwards Added HHPRED Evidence Accession: PF12651.7 Description: RHH_3 ; Ribbon-helix-helix domain Query Range: (35-73) Target Range: (1-41) at 2020-05-04 22:14:33.0
dcedwards changed the gene function to ribbon-helix-helix DNA binding domain at 2020-05-04 22:14:33.0
joannag Added Phages DB Evidence Phage Name: Hyperion Function: ribbon-helix-helix DNA binding domain protein at 2020-01-23 15:42:01.0
joannag Added NCBI BLAST Evidence Accession: AWN03534 Query Range: (4-120) Target Range: (3-119) at 2020-01-23 15:42:01.0
joannag Added HHPRED Evidence Accession: 2BA3_A Description: NikA; DIMER, BACTERIAL CONJUGATION, RELAXASE, DNA; NMR {Plasmid R64} Query Range: (24-69) Target Range: (5-50) at 2020-01-23 15:42:01.0
mcrew99 changed note to Could also be ribbon-helix-helix DNA binding domain protein due to blast or DNA binding protein, as seen on Squash. 87% frequency for tail assembly chaperone at 2020-01-18 21:12:31.0
mcrew99 changed the coding capacity to yes at 2020-01-18 21:12:31.0
mcrew99 changed the gene function to tail assembly chaperone at 2020-01-18 20:34:57.0
mcrew99 changed note to Could also be ribbon-helix-helix DNA binding domain protein or DNA binding protein, as seen on Squash. 87% frequency for tail assembly chaperone at 2020-01-18 20:34:57.0
mcrew99 changed the gene function to ribbon-helix-helix DNA binding domain at 2020-01-18 20:19:33.0
mcrew99 changed note to Could also be DNA binding protein, as seen on Squash. at 2020-01-18 20:19:33.0
mcrew99 changed synteny to Due to the placement of this gene on other closely related phages. at 2020-01-18 20:19:33.0
mcrew99 changed starterator analysis to SS at 2020-01-18 20:19:33.0

Gene Number: 22
dcedwards Added CDD Evidence Accession: pfam03237 Query Range: (86-472) Target Range: (2-382) at 2020-05-06 02:26:28.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: terminase at 2020-05-06 01:32:21.0
dcedwards Added HHPRED Evidence Accession: 3CPE_A Description: DNA packaging protein Gp17; large terminase, Alternative initiation, ATP-binding; HET: PO4; 2.8A {Bacteriophage T4} Query Range: (15-485) Target Range: (119-592) at 2020-05-06 01:32:11.0
mcrew99 Added CDD Evidence Accession: pfam03237 Query Range: (86-472) Target Range: (2-382) at 2020-01-26 23:25:35.0
mcrew99 changed note to 100% probability to be a terminase according to HHPred and 78.6% identity to terminase on BLASTp. HHPred claims 100% probability to be the large subunit of a terminase, could possibly be there is a small subunit in the genome. at 2020-01-26 23:23:35.0
faith Added Phages DB Evidence Phage Name: Hyperion Function: terminase at 2020-01-24 03:21:39.0
faith Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-24 03:21:39.0
faith Added HHPRED Evidence Accession: 5OE8_C Description: Large subunit terminase; large terminase, VIRAL PROTEIN; 2.2A {Deep-sea thermophilic phage D6E} Query Range: (57-484) Target Range: (8-429) at 2020-01-24 03:21:39.0
faith Removed HHPRED Evidence Accession: 3EZK_A Description: DNA packaging protein Gp17; pentameric motor, DNA packaging, Alternative; 34.0A {Bacteriophage T4} Query Range: (15-477) Target Range: (94-559) at 2020-01-24 03:21:39.0
faith changed the gene function to terminase at 2020-01-24 03:21:39.0
faith changed note to 100% probability to be a terminase according to HHPred and 78.6% identity to terminase on BLASTp. at 2020-01-24 03:21:39.0
faith changed synteny to Squash, Hyperion, and Mashley have terminases in the same pham and in similar spots in their genomes. at 2020-01-24 03:21:39.0
joannag Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-23 15:41:18.0
joannag Removed Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-23 15:41:18.0
joannag Removed Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-23 15:41:18.0
joannag Removed Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-23 15:41:18.0
joannag Added NCBI BLAST Evidence Accession: AWN03535 Query Range: (1-507) Target Range: (1-503) at 2020-01-23 15:41:18.0
joannag Added HHPRED Evidence Accession: 3EZK_A Description: DNA packaging protein Gp17; pentameric motor, DNA packaging, Alternative; 34.0A {Bacteriophage T4} Query Range: (15-477) Target Range: (94-559) at 2020-01-23 15:41:18.0
joannag changed the gene function to NKF at 2020-01-23 15:41:18.0
joannag changed the coding capacity to yes at 2020-01-23 15:41:18.0
joannag changed synteny to The gene has unknown function due to not having a similar protein with HHpred and Blast. In subclusters are similar to the cluster as unknown. at 2020-01-23 15:41:18.0
joannag Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-21 16:03:40.0
joannag Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-21 16:03:40.0
joannag Added Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-21 16:03:40.0
joannag Added Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-21 16:03:40.0
joannag Added Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-21 16:03:40.0
joannag changed the gene function to terminase, large subunit at 2020-01-21 16:03:40.0
joannag changed note to The data on percent of frequency is low, but there is a subcluster that is closely the cluster. at 2020-01-21 16:03:40.0
joannag changed synteny to This gene shows a function as a terminase, in HHpred and Blast it indicates the similar protein. at 2020-01-21 16:03:40.0
joannag changed starterator analysis to SS at 2020-01-21 16:03:40.0

Gene Number: 23
dcedwards Added HHPRED Evidence Accession: PF10003.9 Description: DUF2244 ; Integral membrane protein (DUF2244) Query Range: (66-113) Target Range: (15-62) at 2020-05-06 02:59:43.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-06 02:26:43.0
dcedwards Added HHPRED Evidence Accession: PF07098.11 Description: DUF1360 ; Protein of unknown function (DUF1360) Query Range: (18-105) Target Range: (1-96) at 2020-05-06 02:26:43.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-04 22:26:54.0
dcedwards Added HHPRED Evidence Accession: PF10003.9 Description: DUF2244 ; Integral membrane protein (DUF2244) Query Range: (66-113) Target Range: (15-62) at 2020-05-04 22:26:44.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-04 22:15:53.0
dcedwards Removed Phages DB Evidence Phage Name: Beagle Function: membrane protein at 2020-05-04 22:15:53.0
dcedwards Added NCBI BLAST Evidence Accession: QGJ92782 Query Range: (12-109) Target Range: (6-99) at 2020-05-04 22:15:53.0
dcedwards Removed NCBI BLAST Evidence Accession: AWN03536 Query Range: (1-114) Target Range: (1-114) at 2020-05-04 22:15:53.0
dcedwards Added TmHmm evidence at 2020-05-04 22:15:53.0
dcedwards Added TOPCONS evidence at 2020-05-04 22:15:53.0
dcedwards Added Phages DB Evidence Phage Name: Beagle Function: membrane protein at 2020-05-04 20:35:04.0
dcedwards Added HHPRED Evidence Accession: PF10003.9 Description: DUF2244 ; Integral membrane protein (DUF2244) Query Range: (66-113) Target Range: (15-62) at 2020-05-04 20:35:04.0
stephaniegarcia changed note to NCBI 100% confidence of hypothetical protein. Phagesdb membrane protein 100% confidence. Membrane protein, NCBI has membrane protein as a possibility. The phagesdb has a high percentage of membrane protein. Phamerator positioning has a strong indication of the findings in. at 2020-01-24 04:25:21.0
stephaniegarcia changed synteny to The protein has the potential to be a membrane protein due to its positioning and data findings. at 2020-01-24 04:25:21.0
faith changed note to NCBI membrane protein 85% confidence. Phagedb membrane protein 100% confidence. Membrane protein, NCBI has membrane protein as a possibility. The phagedb has a high percentage of membrane protein. Phamerator positioning has a strong indication of the findings. at 2020-01-24 03:26:39.0
faith changed synteny to at 2020-01-24 03:26:39.0
j0ce1yn Added NCBI BLAST Evidence Accession: AWN03536 Query Range: (1-114) Target Range: (1-114) at 2020-01-22 15:51:47.0
j0ce1yn Added Phages DB Evidence Phage Name: RubyRalph Function: membrane protein at 2020-01-22 15:50:30.0
j0ce1yn Added HHPRED Evidence Accession: PF10003.9 Description: DUF2244 ; Integral membrane protein (DUF2244) Query Range: (66-113) Target Range: (15-62) at 2020-01-22 15:50:30.0
j0ce1yn changed the coding capacity to yes at 2020-01-22 15:50:30.0
j0ce1yn changed starterator analysis to SS at 2020-01-22 15:50:30.0
stephaniegarcia changed synteny to Membrane protein, NCBI has membrane protein as a possibility. The phagedb has a high percentage of membrane protein. Phamerator positioning has a strong indication of the findings. at 2020-01-18 20:16:21.0
stephaniegarcia changed the gene function to membrane protein at 2020-01-18 20:11:28.0
stephaniegarcia changed note to NCBI membrane protein 85% confidence. Phagedb membrane protein 100% confidence. at 2020-01-18 20:11:28.0
stephaniegarcia changed synteny to Membrane protein, NCBI has membrane protien as noted. at 2020-01-18 20:11:28.0

Gene Number: 24
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: portal protein at 2020-05-06 01:32:33.0
dcedwards Added HHPRED Evidence Accession: PF04860.12 Description: Phage_portal ; Phage portal protein Query Range: (52-413) Target Range: (1-329) at 2020-05-06 01:32:33.0
faith Added Phages DB Evidence Phage Name: Hyperion Function: portal protein at 2020-01-24 03:36:35.0
faith Added NCBI BLAST Evidence Accession: AWN03538 Query Range: (1-593) Target Range: (1-592) at 2020-01-24 03:36:35.0
faith Added HHPRED Evidence Accession: PF04860.12 Description: Phage_portal ; Phage portal protein Query Range: (52-413) Target Range: (1-329) at 2020-01-24 03:36:35.0
faith changed note to HHPred showed 98.9% probability to be a portal protein. BLASTp showed 79.53% identity to a portal protein. at 2020-01-24 03:36:35.0
faith changed synteny to Mashley, Squash, and Hyperion have portal proteins in a similar location in their genomes. at 2020-01-24 03:36:35.0
j0ce1yn changed synteny to NCBI found E-values of 0.0 for portal proteins in Hyperion, Squash, and OneinaGillian. Pharmerator showed gene in a similar location as other phages’ portal proteins from the same class; Squash and RubyRalph: gene 24, OneinaGillian: gene 21, and Mashley: gene 20. at 2020-01-20 04:43:16.0
j0ce1yn changed the gene function to portal protein at 2020-01-18 20:45:44.0
j0ce1yn changed the coding capacity to yes at 2020-01-18 20:45:44.0
j0ce1yn changed starterator analysis to SS at 2020-01-18 20:45:44.0

Gene Number: 26
dcedwards Added HHPRED Evidence Accession: PF14954.6 Description: LIX1 ; Limb expression 1 Query Range: (8-22) Target Range: (52-66) at 2020-05-06 17:16:55.0
dcedwards Added HHPRED Evidence Accession: PF14954.6 Description: LIX1 ; Limb expression 1 Query Range: (8-22) Target Range: (52-66) at 2020-05-06 03:00:51.0
faith changed the coding capacity to yes at 2020-05-06 02:43:54.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-06 02:27:34.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03540 Query Range: (1-50) Target Range: (1-50) at 2020-05-06 02:27:34.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-04 22:48:32.0
dcedwards Added HHPRED Evidence Accession: PF14954.6 Description: LIX1 ; Limb expression 1 Query Range: (8-22) Target Range: (52-66) at 2020-05-04 22:48:32.0
dcedwards changed synteny to The gene location and size is similar to those of Mashely and Hyperion at 2020-05-04 22:20:08.0
dcedwards changed the gene function to NKF at 2020-05-04 22:19:41.0
sam_munoz607 changed starterator analysis to SS at 2020-01-27 02:21:50.0
sam_munoz607 changed the gene function to major capsid protein at 2020-01-18 20:27:46.0
sam_munoz607 changed note to It is believed to be a hypothetical protein from the Blastp results. Sea-phages functional assignment shows no data on hypothetical proteins. Phagesdb function frequency shows that it could be a head-to-tail connector protein. Gene seems to match a major capsid gene from phages Mashely and Hyperion. at 2020-01-18 20:27:46.0
sam_munoz607 changed the coding capacity to no at 2020-01-18 20:27:46.0
sam_munoz607 changed synteny to The gene location and size is similar to those of Mashely and Hyperion’s major capsid protein, giving fizzle’s gene 26 a high probability of being a major capsid protein at 2020-01-18 20:27:46.0
sam_munoz607 changed the gene function to NKF at 2020-01-18 19:53:37.0
sam_munoz607 changed note to It is believed to be a hypothetical protein from the Blastp results. Sea-phages functional assignment shows no data on hypothetical proteins. Phagesdb function frequency shows that it could be a head-to-tail connector protein. at 2020-01-18 19:53:37.0

Gene Number: 27
dcedwards changed note to HHpred showed a 20.4% probability of it being a major capsid protein (HK97) at 2020-05-06 18:44:38.0
dcedwards Added HHPRED Evidence Accession: 1YKE_D Description: RNA polymerase II mediator complex; GENE REGULATION; 3.3A {Saccharomyces cerevisiae} SCOP: a.252.1.1 Query Range: (5-84) Target Range: (52-130) at 2020-05-06 18:42:13.0
dcedwards Added HHPRED Evidence Accession: 3OL3_A Description: Putative uncharacterized protein; Mycobacterium, tuberculosis, Rv0543c, ortholog, iodide; HET: IOD, PGE, PG4; 1.95A {Mycobacterium smegmatis} Query Range: (11-54) Target Range: (44-99) at 2020-05-06 18:42:13.0
faith changed the coding capacity to yes at 2020-05-06 02:46:05.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: major capsid protein at 2020-05-06 02:27:48.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: major capsid protein at 2020-05-04 22:52:09.0
dcedwards changed the gene function to major capsid protein at 2020-01-27 15:22:39.0
sam_munoz607 Added Phages DB Evidence Phage Name: Squash Function: major capsid protein at 2020-01-27 00:22:25.0
sam_munoz607 changed note to HHpred showed a 54% probability of it being a major capsid protein. at 2020-01-27 00:22:25.0
sam_munoz607 changed the coding capacity to no at 2020-01-27 00:22:25.0
aequirl Removed Phages DB Evidence Phage Name: Mashley Function: major capsid protein at 2020-01-22 17:23:54.0
aequirl Removed Phages DB Evidence Phage Name: Hyperion Function: major capsid protein at 2020-01-22 17:23:54.0
aequirl Removed NCBI BLAST Evidence Accession: QED11840 Query Range: (1-610) Target Range: (1-608) at 2020-01-22 17:23:54.0
sam_munoz607 Added HHPRED Evidence Accession: 1YKH_B Description: RNA polymerase II mediator complex; GENE REGULATION; 3.0A {Saccharomyces cerevisiae} SCOP: a.252.1.1 Query Range: (5-84) Target Range: (52-130) at 2020-01-22 15:36:12.0
sam_munoz607 changed the coding capacity to yes at 2020-01-22 15:36:12.0
sam_munoz607 changed starterator analysis to SS at 2020-01-22 15:36:12.0
chloeogrady changed note to I ran this protein through HHpred; however, the information on the website does not match the PECAAN tool. at 2020-01-18 20:49:48.0
chloeogrady changed synteny to Compared to other similar bacteriophages (Mashley, Hyperion, and Squash), the percent identity (77.5%) provided proof that this is a major capsid protein. After running the material through NCBI and HHpred, I confirmed this information. at 2020-01-18 20:36:18.0
chloeogrady Added Phages DB Evidence Phage Name: Hyperion Function: major capsid protein at 2020-01-18 20:28:14.0
chloeogrady Added Phages DB Evidence Phage Name: Mashley Function: major capsid protein at 2020-01-18 20:28:14.0
chloeogrady Added NCBI BLAST Evidence Accession: QED11840 Query Range: (1-610) Target Range: (1-608) at 2020-01-18 20:28:14.0
chloeogrady Added NCBI BLAST Evidence Accession: AWN03541 Query Range: (1-610) Target Range: (1-608) at 2020-01-18 20:28:14.0
chloeogrady changed the gene function to Major Capsid Protein at 2020-01-18 20:28:14.0
chloeogrady Added Phages DB Evidence Phage Name: Squash Function: major capsid protein at 2020-01-18 18:44:16.0

Gene Number: 28
dcedwards Added HHPRED Evidence Accession: cd03527 Description: RuBisCO_small; Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Query Range: (87-148) Target Range: (7-75) at 2020-05-06 02:28:01.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-04 23:01:51.0
dcedwards Added HHPRED Evidence Accession: 1RBL_L Description: RIBULOSE 1,5 BISPHOSPHATE CARBOXYLASE/OXYGENASE (RUBISCO); LYASE(CARBON-CARBON), LYASE; HET: CAP, FMT; 2.2A {Synechococcus elongatus} SCOP: d.73.1.1 Query Range: (87-149) Target Range: (15-83) at 2020-05-04 23:01:51.0
aequirl Added NCBI BLAST Evidence Accession: AWN03542 Query Range: (1-244) Target Range: (1-244) at 2020-01-22 17:53:19.0
kristinsefcik Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 15:52:44.0
aequirl changed starterator analysis to SS at 2020-01-18 23:40:38.0
aequirl changed the coding capacity to yes at 2020-01-18 20:18:01.0
aequirl changed the gene function to NKF at 2020-01-18 20:16:24.0
aequirl changed synteny to NCBI blastp showed a 98% match with 3 other phages labeled “hypothetical protein.” Cannot find any other related function on HHpred. at 2020-01-18 20:16:24.0

Gene Number: 29
dcedwards Added HHPRED Evidence Accession: cd00525 Description: AE_Prim_S_like; AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. Query Range: (21-50) Target Range: (75-103) at 2020-05-06 17:17:26.0
dcedwards Added HHPRED Evidence Accession: cd00525 Description: AE_Prim_S_like; AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. Query Range: (21-50) Target Range: (75-103) at 2020-05-06 03:30:42.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-06 02:28:13.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-04 23:02:25.0
dcedwards Added HHPRED Evidence Accession: cd00525 Description: AE_Prim_S_like; AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. Query Range: (21-50) Target Range: (75-103) at 2020-05-04 23:02:25.0
aequirl Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 17:43:31.0
aequirl Removed Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-22 17:43:31.0
aequirl Removed Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 17:43:31.0
aequirl Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-22 17:43:31.0
aequirl Removed Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-22 17:43:31.0
aequirl Added NCBI BLAST Evidence Accession: QED11842 Query Range: (1-167) Target Range: (1-167) at 2020-01-22 17:43:31.0
aequirl changed the coding capacity to yes at 2020-01-22 17:43:31.0
aequirl changed starterator analysis to SS at 2020-01-22 17:43:31.0
kristinsefcik Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-18 20:38:20.0
kristinsefcik Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-18 20:38:20.0
kristinsefcik Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-18 20:38:20.0
kristinsefcik Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-18 20:38:20.0
kristinsefcik Added Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-18 20:38:20.0
kristinsefcik Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-18 20:38:20.0
kristinsefcik changed the gene function to NKF at 2020-01-18 19:27:39.0
kristinsefcik changed the gene function to Unknown at 2020-01-18 19:26:31.0
kristinsefcik changed note to All of the other phages similar to this one is unknown. at 2020-01-18 19:26:31.0
kristinsefcik changed synteny to Table unknown. at 2020-01-18 19:26:31.0

Gene Number: 30
dcedwards Added NCBI BLAST Evidence Accession: AWN03544 Query Range: (1-312) Target Range: (2-314) at 2020-05-04 23:11:52.0
dcedwards Added HHPRED Evidence Accession: PF06820.12 Description: Phage_fiber_C ; Putative prophage tail fibre C-terminus Query Range: (238-277) Target Range: (9-60) at 2020-05-04 23:11:52.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: major tail protein at 2020-05-04 23:03:53.0
gspotz changed note to HHpred indicates it might be a surface tail protein, but Blastp showed stronger evidence. at 2020-01-18 20:43:45.0
gspotz changed synteny to Blastp shows strong probability that this gene is a major tail protein. at 2020-01-18 20:43:45.0
gspotz changed the gene function to major tail protein at 2020-01-18 20:41:18.0
gspotz changed the coding capacity to yes at 2020-01-18 20:41:18.0

Gene Number: 31
dcedwards Added HHPRED Evidence Accession: PF09206.11 Description: ArabFuran-catal ; Alpha-L-arabinofuranosidase B, catalytic Query Range: (169-299) Target Range: (7-152) at 2020-05-06 17:17:40.0
dcedwards Added HHPRED Evidence Accession: PF09206.11 Description: ArabFuran-catal ; Alpha-L-arabinofuranosidase B, catalytic Query Range: (169-299) Target Range: (7-152) at 2020-05-06 03:31:05.0
dcedwards Added Phages DB Evidence Phage Name: Eileen Function: function unknown at 2020-05-06 02:28:44.0
dcedwards Added NCBI BLAST Evidence Accession: ODT43226 Query Range: (175-350) Target Range: (536-713) at 2020-05-06 02:28:44.0
dcedwards Added Phages DB Evidence Phage Name: Eileen Function: function unknown at 2020-05-04 23:08:32.0
dcedwards Added CDD Evidence Accession: pfam09206 Query Range: (177-250) Target Range: (15-90) at 2020-05-04 23:08:32.0
dcedwards Added HHPRED Evidence Accession: PF09206.11 Description: ArabFuran-catal ; Alpha-L-arabinofuranosidase B, catalytic Query Range: (169-299) Target Range: (7-152) at 2020-05-04 23:08:32.0
tannerjtaylor changed the gene function to NKF at 2020-01-18 21:16:23.0
tannerjtaylor changed note to If anything, this could be a major tail protein due to a small amount of similarity in the general positioning of the gene. However, there was no facts to back this up. at 2020-01-18 21:16:23.0
tannerjtaylor changed synteny to There is not enough similarity in the other phages to make connections. at 2020-01-18 21:16:23.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-18 21:04:11.0
tannerjtaylor changed the coding capacity to yes at 2020-01-18 20:59:52.0
tannerjtaylor changed starterator analysis to SS at 2020-01-18 20:59:52.0

Gene Number: 32
dcedwards Added HHPRED Evidence Accession: 5AO9_A Description: ESTERASE (E.C.3.1.1.1); HYDROLASE; HET: PGE, EPE, EDO, PE8, PEG; 1.58A {THERMOGUTTA TERRIFONTIS} Query Range: (1-268) Target Range: (8-284) at 2020-05-04 23:30:10.0
dcedwards Removed HHPRED Evidence Accession: 3FCX_B Description: S-formylglutathione hydrolase(E.C.3.1.2.12); retinoblastoma, genetic marker, esterase, HYDROLASE; 1.5A {Homo sapiens} Query Range: (10-262) Target Range: (19-282) at 2020-05-04 23:30:10.0
dcedwards Added Phages DB Evidence Phage Name: Mendel Function: esterase at 2020-05-04 23:29:43.0
dcedwards Added NCBI BLAST Evidence Accession: AYQ99938 Query Range: (1-256) Target Range: (1-257) at 2020-05-04 23:29:43.0
dcedwards Removed NCBI BLAST Evidence Accession: WP_094640257 Query Range: (1-256) Target Range: (1-259) at 2020-05-04 23:29:43.0
dcedwards Added HHPRED Evidence Accession: 3FCX_B Description: S-formylglutathione hydrolase(E.C.3.1.2.12); retinoblastoma, genetic marker, esterase, HYDROLASE; 1.5A {Homo sapiens} Query Range: (10-262) Target Range: (19-282) at 2020-05-04 23:29:43.0
dcedwards changed the gene function to esterase at 2020-05-04 23:29:43.0
skyler Added CDD Evidence Accession: pfam00561 Query Range: (38-277) Target Range: (1-245) at 2020-01-27 04:11:05.0
skyler Added NCBI BLAST Evidence Accession: WP_094640257 Query Range: (1-256) Target Range: (1-259) at 2020-01-27 04:11:05.0
gvazquez Added Phages DB Evidence Phage Name: Mellie Function: esterase at 2020-01-18 20:57:42.0
gvazquez Added HHPRED Evidence Accession: 3DKR_A Description: Esterase D; alpha beta hydrolase, catalytic triad; 1.6A {Lactobacillus rhamnosus} Query Range: (19-262) Target Range: (4-251) at 2020-01-18 20:57:42.0
gvazquez changed synteny to Mellie shows similarity base on sequence number given. The sequence is smaller on Mellie but they have a similar gene base on size. They are also forward. at 2020-01-18 20:57:42.0
gvazquez changed the gene function to hydrolase at 2020-01-18 20:37:44.0
gvazquez changed note to Base on NCBI blast the protein indicated a hydrolase at a 51.4% identity with a querry cover of 85%. The HHpred did not indicated it was a hydrolase base on the chronological order. The Nr was at 7 with a 99.89 % propability. The start and end codon ended with similar digits according to the Pham 94971. at 2020-01-18 20:37:44.0
gvazquez changed the coding capacity to yes at 2020-01-18 20:37:44.0

Gene Number: 33
dcedwards Added HHPRED Evidence Accession: PF11436.8 Description: DUF3199 ; Protein of unknown function (DUF3199) Query Range: (187-262) Target Range: (50-115) at 2020-05-06 17:17:59.0
dcedwards Added HHPRED Evidence Accession: cd08051 Description: gp6_gp15_like; Head-Tail Connector Proteins gp6 and gp15, and similar proteins. Members of this family include the proteins gp6 and gp15 from bacteriophage HK97 and SPP1, respectively. Query Range: (187-257) Target Range: (44-94) at 2020-05-06 03:33:06.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: head-to-tail adaptor at 2020-05-06 02:29:14.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: head-to-tail adaptor at 2020-05-04 23:31:16.0
dcedwards Added NCBI BLAST Evidence Accession: QED11846 Query Range: (1-281) Target Range: (1-282) at 2020-05-04 23:31:16.0
dcedwards Added HHPRED Evidence Accession: cd08053 Description: Yqbg; Putative Head-Tail Connector Protein Yqbg from Bacillus subtilis and similar proteins. Query Range: (187-256) Target Range: (49-110) at 2020-05-04 23:31:16.0
dcedwards Removed HHPRED Evidence Accession: 5A21_C Description: PORTAL PROTEIN, 15 PROTEIN, HEAD; VIRAL PROTEIN, VIRAL INFECTION, TAILED; 7.2A {BACILLUS PHAGE SPP1} Query Range: (187-261) Target Range: (48-102) at 2020-05-04 23:31:16.0
gvazquez Added HHPRED Evidence Accession: 5A21_C Description: PORTAL PROTEIN, 15 PROTEIN, HEAD; VIRAL PROTEIN, VIRAL INFECTION, TAILED; 7.2A {BACILLUS PHAGE SPP1} Query Range: (187-261) Target Range: (48-102) at 2020-01-27 16:05:01.0
gvazquez Removed HHPRED Evidence Accession: PF11436.8 Description: DUF3199 ; Protein of unknown function (DUF3199) Query Range: (187-262) Target Range: (50-115) at 2020-01-27 16:05:01.0
gvazquez Added Phages DB Evidence Phage Name: Hyperion Function: head-to-tail adaptor at 2020-01-22 16:41:43.0
gvazquez Added HHPRED Evidence Accession: PF11436.8 Description: DUF3199 ; Protein of unknown function (DUF3199) Query Range: (187-262) Target Range: (50-115) at 2020-01-22 16:41:43.0
gvazquez changed note to Based on NCBI Blast there is a percent identity of 69.15% of the function head-to-tail-adaptor. HH pred indicates a probability of 91.89% that it is also a head-to-tail adaptor. at 2020-01-22 16:41:43.0
skyler changed synteny to In Phamerator the protein matches up with head-to-tail adaptor proteins on the other Cluster EG phages. The first couple hits on Blastp say head-to-tail adaptor. Several hits on HHpred say head-to-tail connector. at 2020-01-18 21:54:52.0
skyler changed the gene function to head-to-tail adaptor at 2020-01-18 21:46:51.0
skyler changed the coding capacity to yes at 2020-01-18 21:42:03.0
skyler changed starterator analysis to SS at 2020-01-18 21:42:03.0

Gene Number: 34
dcedwards Added HHPRED Evidence Accession: 5C17_A Description: MerB2; Bacterial Proteins, Cysteine, Lyases, Mercury; HET: GOL, DTV; 1.24A {Bacillus megaterium} Query Range: (106-162) Target Range: (35-78) at 2020-05-06 17:18:22.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-04 23:31:34.0
skyler Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-27 07:13:48.0
skyler Added NCBI BLAST Evidence Accession: AWN03548 Query Range: (1-175) Target Range: (1-176) at 2020-01-27 07:13:48.0
skyler Added HHPRED Evidence Accession: 5C17_A Description: MerB2; Bacterial Proteins, Cysteine, Lyases, Mercury; HET: GOL, DTV; 1.24A {Bacillus megaterium} Query Range: (106-162) Target Range: (35-78) at 2020-01-27 07:13:48.0
cebutler changed note to This is most likely a minor capsid protein (100%). at 2020-01-22 16:24:22.0
cebutler changed the coding capacity to yes at 2020-01-22 16:24:22.0
cebutler changed synteny to There are several reasons for why the function is still unknown. at 2020-01-22 16:24:22.0
cebutler changed starterator analysis to SS at 2020-01-22 16:24:22.0
rebbabcock1 changed the gene function to NKF at 2020-01-18 20:11:27.0
rebbabcock1 changed synteny to No other phages contain a closely related gene. at 2020-01-18 20:11:27.0

Gene Number: 35
dcedwards Added HHPRED Evidence Accession: PF04883.12 Description: HK97-gp10_like ; Bacteriophage HK97-gp10, putative tail-component Query Range: (13-81) Target Range: (10-73) at 2020-05-06 03:36:14.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-06 02:29:35.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-04 23:32:55.0
skyler Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-27 06:32:10.0
skyler Added NCBI BLAST Evidence Accession: AWN04654 Query Range: (1-133) Target Range: (1-137) at 2020-01-27 06:32:10.0
skyler Added HHPRED Evidence Accession: PF04883.12 Description: HK97-gp10_like ; Bacteriophage HK97-gp10, putative tail-component Query Range: (13-81) Target Range: (10-73) at 2020-01-27 06:32:10.0
skyler changed the coding capacity to yes at 2020-01-27 06:32:10.0
cebutler changed the gene function to NKF at 2020-01-18 20:43:33.0
cebutler changed the coding capacity to no at 2020-01-18 20:42:20.0
cebutler changed note to There is a 24% frequency of being a tail assembly chaperone. at 2020-01-18 20:41:17.0
cebutler changed synteny to There are several reasons for why the function is unknown. at 2020-01-18 20:41:17.0
cebutler changed starterator analysis to SS at 2020-01-18 20:41:17.0
cebutler changed the gene function to UNK at 2020-01-18 19:52:31.0

Gene Number: 36
faith changed the coding capacity to yes at 2020-05-06 03:02:38.0
dcedwards Added HHPRED Evidence Accession: 6F3T_C Description: Transcription initiation factor TFIID subunit; Transcription, Complex, TFIID, TAF, TBD-associated; HET: SEP; 2.5A {Homo sapiens} Query Range: (48-94) Target Range: (6-51) at 2020-05-06 02:30:11.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: tail assembly chaperone at 2020-05-04 23:28:52.0
mcrew99 changed note to tail assembly chaperone had a 47% function frequency. blastp also had 100% query coverage of tail assembly chaperone for the similar phages. at 2020-01-29 15:48:13.0
mcrew99 changed synteny to In phamerator, the gene seems to be conserved within other phages of cluster EG, such as Squash, Hyperion, and Mashley. at 2020-01-29 15:48:13.0
sgconger Removed Phages DB Evidence Phage Name: Hyperion Function: tail assembly chaperone at 2020-01-26 23:47:40.0
sgconger Removed Phages DB Evidence Phage Name: Mashley Function: tail assembly chaperone at 2020-01-26 23:47:40.0
sgconger Removed Phages DB Evidence Phage Name: Squash Function: tail assembly chaperone at 2020-01-26 23:47:40.0
sgconger Removed Phages DB Evidence Phage Name: Hyperion Function: tail assembly chaperone at 2020-01-26 23:47:40.0
sgconger Removed Phages DB Evidence Phage Name: Mashley Function: tail assembly chaperone at 2020-01-26 23:47:40.0
sgconger Removed Phages DB Evidence Phage Name: RubyRalph Function: tail assembly chaperone at 2020-01-26 23:47:40.0
sgconger Removed Phages DB Evidence Phage Name: OneinaGillian Function: tail assembly chaperone at 2020-01-26 23:47:40.0
sgconger Removed Phages DB Evidence Phage Name: OneinaGillian Function: tail assembly chaperone at 2020-01-26 23:47:40.0
sgconger Added NCBI BLAST Evidence Accession: AWN03550 Query Range: (1-152) Target Range: (1-152) at 2020-01-26 23:47:40.0
sgconger Added Phages DB Evidence Phage Name: Squash Function: tail assembly chaperone at 2020-01-18 20:58:04.0
sgconger Added Phages DB Evidence Phage Name: Hyperion Function: tail assembly chaperone at 2020-01-18 20:58:04.0
sgconger Added Phages DB Evidence Phage Name: Mashley Function: tail assembly chaperone at 2020-01-18 20:58:04.0
sgconger Added Phages DB Evidence Phage Name: Squash Function: tail assembly chaperone at 2020-01-18 20:58:04.0
sgconger Added Phages DB Evidence Phage Name: Hyperion Function: tail assembly chaperone at 2020-01-18 20:58:04.0
sgconger Added Phages DB Evidence Phage Name: Mashley Function: tail assembly chaperone at 2020-01-18 20:58:04.0
sgconger Added Phages DB Evidence Phage Name: RubyRalph Function: tail assembly chaperone at 2020-01-18 20:58:04.0
sgconger Added Phages DB Evidence Phage Name: OneinaGillian Function: tail assembly chaperone at 2020-01-18 20:58:04.0
sgconger Added Phages DB Evidence Phage Name: OneinaGillian Function: tail assembly chaperone at 2020-01-18 20:58:04.0
sgconger changed the gene function to tail assembly chaperone at 2020-01-18 20:58:04.0
sgconger changed synteny to tail assembly chaperon had a 47% function frequency. blastp also had 100% query coverage of tail assembly chaperone for the similar phages. at 2020-01-18 20:58:04.0
sgconger changed starterator analysis to SS at 2020-01-18 20:58:04.0

Gene Number: 37
dcedwards Added HHPRED Evidence Accession: 6V8I_CF Description: Distal Tail Protein, gp58, Tail-Associated; phage tail, tail tip, tape; 3.7A {Staphylococcus virus 80alpha} Query Range: (46-666) Target Range: (107-795) at 2020-05-06 17:18:57.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: tape measure protein at 2020-05-06 02:30:44.0
dcedwards Added NCBI BLAST Evidence Accession: WP_018188153 Query Range: (644-921) Target Range: (524-798) at 2020-05-05 00:25:21.0
sgconger Added HHPRED Evidence Accession: PF15967.5 Description: Nucleoporin_FG2 ; Nucleoporin FG repeated region Query Range: (634-844) Target Range: (246-442) at 2020-01-22 15:45:46.0
sgconger changed note to hhpred does not have a tapemeasure match, but in comparison to other phages and synteny, this gene should be the tapemeasure. at 2020-01-22 15:45:46.0
mcrew99 changed the coding capacity to yes at 2020-01-18 21:21:31.0
mcrew99 changed starterator analysis to SS at 2020-01-18 21:21:31.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: tape measure protein at 2020-01-18 18:30:43.0
dcedwards Added NCBI BLAST Evidence Accession: AWN04657 Query Range: (1-1023) Target Range: (1-1058) at 2020-01-18 18:30:43.0
dcedwards changed the gene function to tape measure protein at 2020-01-18 18:30:43.0
dcedwards changed note to hhpred does not have a tapemeasure match. but in comparison to other phages and synteny, this gene should be the tapemeasure. at 2020-01-18 18:30:43.0
dcedwards changed synteny to longest gene in genome. located after capsid, portal, and capsid maturation structural protein. located before tail protein genes. there is only one. at 2020-01-18 18:30:43.0

Gene Number: 38
dcedwards Added HHPRED Evidence Accession: 4V96_AX Description: ORF48, ORF46, BPP; Distal tail protein, Receptor-binding protein; 3.8A {Lactococcus phage TP901-1} Query Range: (69-227) Target Range: (31-154) at 2020-05-06 17:19:18.0
dcedwards Added HHPRED Evidence Accession: 4V96_AS Description: ORF48, ORF46, BPP; Distal tail protein, Receptor-binding protein; 3.8A {Lactococcus phage TP901-1} Query Range: (69-227) Target Range: (31-154) at 2020-05-06 03:36:43.0
faith changed the coding capacity to yes at 2020-05-06 03:10:28.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: minor tail protein at 2020-05-06 02:30:56.0
dcedwards Added HHPRED Evidence Accession: PF05709.11 Description: Sipho_tail ; Phage tail protein Query Range: (78-275) Target Range: (2-155) at 2020-05-05 00:25:57.0
dcedwards Added HHPRED Evidence Accession: 4DIV_T Description: ORF48, ORF46; Distal tail protein, Receptor-binding protein; 3.8A {Lactococcus phage TP901-1} Query Range: (69-227) Target Range: (31-154) at 2020-05-05 00:25:57.0
mcrew99 changed note to In BLAST it query cover of 100% but in PECAAN the highest frequency% was 31. All the hits in PECAAN show other phages in the cluster have this gene as a minor tail protein. at 2020-01-29 16:00:33.0
mcrew99 changed the coding capacity to no at 2020-01-29 16:00:33.0
mcrew99 changed synteny to This gene is conserved within the other phages of this cluster, Hyperion, Squash, and Mashley, all have this gene in similar locations on the genome. at 2020-01-29 16:00:33.0
sgconger Removed Phages DB Evidence Phage Name: Hyperion Function: minor tail protein at 2020-01-26 22:50:52.0
sgconger Removed Phages DB Evidence Phage Name: Squash Function: minor tail protein at 2020-01-26 22:50:52.0
sgconger Removed Phages DB Evidence Phage Name: FuzzBuster Function: minor tail protein at 2020-01-26 22:50:52.0
sgconger Removed Phages DB Evidence Phage Name: OneinaGillian Function: minor tail protein at 2020-01-26 22:50:52.0
sgconger Added NCBI BLAST Evidence Accession: QED11852 Query Range: (1-446) Target Range: (1-446) at 2020-01-26 22:50:52.0
joannag Added Phages DB Evidence Phage Name: Mashley Function: minor tail protein at 2020-01-21 16:53:31.0
joannag Added Phages DB Evidence Phage Name: Hyperion Function: minor tail protein at 2020-01-21 16:53:31.0
joannag Added Phages DB Evidence Phage Name: Squash Function: minor tail protein at 2020-01-21 16:53:31.0
joannag Added Phages DB Evidence Phage Name: FuzzBuster Function: minor tail protein at 2020-01-21 16:53:31.0
joannag Added Phages DB Evidence Phage Name: OneinaGillian Function: minor tail protein at 2020-01-21 16:53:31.0
joannag changed the gene function to minor tail protein at 2020-01-21 16:53:31.0
joannag changed synteny to In BLAST it query cover of 100% but in PECAAN the highest frequency% was 31. Has a subcluster similar to the cluster phage as minor tail protein at 2020-01-21 16:53:31.0
joannag changed starterator analysis to SS at 2020-01-21 16:53:31.0

Gene Number: 39
dcedwards Added HHPRED Evidence Accession: 3L5H_A Description: Interleukin-6 receptor subunit beta; Ig-like, FNIII, Cell membrane, Disulfide; HET: BMA, FUC, NAG, SO4, NDG; 3.6A {Homo sapiens} Query Range: (14-573) Target Range: (41-589) at 2020-05-06 18:50:54.0
dcedwards changed synteny to Minor Tail Protein, NCBI and Phagedb have both come to the same findings. Phamerator shows three minor tail proteins in a row in similar phages, with this beingthe middle tail. at 2020-05-06 18:50:54.0
dcedwards Added Phages DB Evidence Phage Name: Tempo Function: minor tail protein at 2020-05-06 02:31:10.0
dcedwards changed synteny to Minor Tail Protein, NCBI and Phagedb have both come to the same findings. Phamerator shows three minor tail proteins in a row in similar phages. at 2020-05-05 00:33:26.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: minor tail protein at 2020-05-05 00:32:17.0
dcedwards Removed HHPRED Evidence Accession: 2Q7N_C Description: Leukemia inhibitory factor receptor/Leukemia inhibitory; CYTOKINE CELL SURFACE RECEPTOR COMPLEX; HET: NAG, FUC, MAN; 4.0A {Mus musculus} Query Range: (109-576) Target Range: (3-488) at 2020-05-05 00:26:16.0
j0ce1yn Added CDD Evidence Accession: cd00063 Query Range: (206-299) Target Range: (1-93) at 2020-01-22 16:18:43.0
j0ce1yn Added HHPRED Evidence Accession: 2Q7N_C Description: Leukemia inhibitory factor receptor/Leukemia inhibitory; CYTOKINE CELL SURFACE RECEPTOR COMPLEX; HET: NAG, FUC, MAN; 4.0A {Mus musculus} Query Range: (109-576) Target Range: (3-488) at 2020-01-22 16:18:43.0
j0ce1yn changed the gene function to minor tail protein at 2020-01-22 16:14:46.0
j0ce1yn changed note to NCBI minor tail protein, 100% confidence. HHpred and Conserved Domain Database to not contain evidence to support this conclusion. at 2020-01-22 16:14:46.0
j0ce1yn changed the coding capacity to yes at 2020-01-22 16:14:46.0
j0ce1yn changed synteny to Minor Tail Protein, NCBI and Phagedb have both come to the same findings. at 2020-01-22 16:14:46.0
j0ce1yn changed starterator analysis to SS at 2020-01-22 16:14:46.0
j0ce1yn Added Phages DB Evidence Phage Name: Mashley Function: minor tail protein at 2020-01-22 16:09:50.0
j0ce1yn Added NCBI BLAST Evidence Accession: QED11853 Query Range: (1-979) Target Range: (1-973) at 2020-01-22 16:09:50.0
stephaniegarcia changed the gene function to major tail protein at 2020-01-18 20:37:27.0
stephaniegarcia changed note to NCBI major tail protein, 100% confidence. at 2020-01-18 20:37:27.0
stephaniegarcia changed the coding capacity to no at 2020-01-18 20:37:27.0
stephaniegarcia changed synteny to Major Tail Protein, NCBI and Phagedb have both come to the same findings. at 2020-01-18 20:37:27.0
stephaniegarcia changed starterator analysis to NA at 2020-01-18 20:37:27.0

Gene Number: 40
dcedwards Added HHPRED Evidence Accession: PF06605.11 Description: Prophage_tail ; Prophage endopeptidase tail Query Range: (40-376) Target Range: (1-322) at 2020-05-06 17:21:53.0
dcedwards Added Phages DB Evidence Phage Name: OneinaGillian Function: minor tail protein at 2020-05-06 02:33:58.0
dcedwards Added NCBI BLAST Evidence Accession: AYB70148 Query Range: (6-383) Target Range: (5-382) at 2020-05-05 00:41:12.0
dcedwards Added HHPRED Evidence Accession: PF06605.11 Description: Prophage_tail ; Prophage endopeptidase tail Query Range: (40-376) Target Range: (1-322) at 2020-05-05 00:27:05.0
dcedwards Added Phages DB Evidence Phage Name: OneinaGillian Function: minor tail protein at 2020-05-05 00:26:52.0
dcedwards Removed NCBI BLAST Evidence Accession: AYB70148 Query Range: (6-383) Target Range: (5-382) at 2020-05-05 00:26:52.0
stephaniegarcia changed note to The NCBI had a range of 98% – 95% of major tail protein, the phamerator also has strong indication of this information.HHpred has a variety of indications however tail protein is an option. at 2020-01-24 04:24:28.0
joannag Added Phages DB Evidence Phage Name: OneinaGillian Function: minor tail protein at 2020-01-23 15:44:38.0
joannag Added NCBI BLAST Evidence Accession: AYB70148 Query Range: (6-383) Target Range: (5-382) at 2020-01-23 15:44:38.0
joannag Added HHPRED Evidence Accession: PF14594.6 Description: Sipho_Gp37 ; Siphovirus ReqiPepy6 Gp37-like protein Query Range: (19-372) Target Range: (1-342) at 2020-01-23 15:44:38.0
j0ce1yn changed synteny to NCBI found E-values of 0.0 for minor tail proteins in Hyperion, Squash, OneinaGillian and Mashley. Pharmerator showed gene in a similar location as other phages’ minor tail proteins from the same class; Squash and RubyRalph: gene 41, OneinaGillian: gene 38, Mashley: gene 37, and Hyperion: gene 38. HHPred visualization was majority red along with hitlist showing tail proteins. at 2020-01-20 04:55:46.0
j0ce1yn changed the gene function to minor tail protein at 2020-01-18 21:00:08.0
j0ce1yn changed the coding capacity to yes at 2020-01-18 21:00:08.0
j0ce1yn changed starterator analysis to SS at 2020-01-18 21:00:08.0

Gene Number: 41
dcedwards Added HHPRED Evidence Accession: PF07944.12 Description: Glyco_hydro_127 ; Beta-L-arabinofuranosidase, GH127 Query Range: (149-248) Target Range: (417-484) at 2020-05-06 17:22:12.0
faith changed the coding capacity to yes at 2020-05-06 17:19:25.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-06 02:34:45.0
dcedwards Added HHPRED Evidence Accession: PF07944.12 Description: Glyco_hydro_127 ; Beta-L-arabinofuranosidase, GH127 Query Range: (149-248) Target Range: (417-484) at 2020-05-05 00:41:49.0
dcedwards changed the gene function to NKF at 2020-05-05 00:28:02.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 00:27:49.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03555 Query Range: (1-248) Target Range: (1-252) at 2020-05-05 00:27:49.0
alonnndramtz changed the gene function to minor tail protein at 2020-01-27 12:23:48.0
alonnndramtz changed starterator analysis to SS at 2020-01-27 12:23:48.0

Gene Number: 42
dcedwards Added HHPRED Evidence Accession: cd03421 Description: SirA_like_N; SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. Query Range: (22-64) Target Range: (24-65) at 2020-05-06 17:22:29.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 00:52:50.0
dcedwards Added NCBI BLAST Evidence Accession: AWN04662 Query Range: (1-80) Target Range: (1-78) at 2020-05-05 00:52:50.0
dcedwards Removed NCBI BLAST Evidence Accession: QCQ57464 Query Range: (1-76) Target Range: (1-71) at 2020-05-05 00:52:50.0
dcedwards changed the gene function to NKF at 2020-05-04 20:38:09.0
sam_munoz607 Added Phages DB Evidence Phage Name: Sucha Function: function unknown at 2020-01-27 02:24:52.0
sam_munoz607 Added NCBI BLAST Evidence Accession: QCQ57464 Query Range: (1-76) Target Range: (1-71) at 2020-01-27 02:24:52.0
sam_munoz607 Added HHPRED Evidence Accession: 2HEG_B Description: Class B acid phosphatase (E.C.3.1.3.2); Apha class B Acid Phosphatase/Phosphotransferase; 1.5A {Escherichia coli} SCOP: c.108.1.12 Query Range: (39-59) Target Range: (10-30) at 2020-01-27 02:24:52.0
sam_munoz607 changed the coding capacity to yes at 2020-01-27 02:24:33.0
sam_munoz607 changed starterator analysis to SS at 2020-01-27 02:24:33.0
sam_munoz607 changed note to HHpred give a 52% probability that it could be a RNA-binding protein. Phagesdb functions frequency shows a 64% probability that it could be a minor tail protein. Because of these similarities in location and size of the gene, with Mashely and Hyperion, it contains a high chance of being a membrane protein. at 2020-01-18 20:31:33.0
sam_munoz607 changed the gene function to membrane protein at 2020-01-18 20:23:48.0
sam_munoz607 changed note to HHpred give a 52% probability that it could be a RNA-binding protein. Phagesdb functions frequency shows a 64% probability that it could be a minor tail protein. Because of this similarities in location and size of the gene, with Mashely and Hyperion, it contains a high change of being a membrane protein. at 2020-01-18 20:23:48.0
sam_munoz607 changed the coding capacity to no at 2020-01-18 20:23:48.0
sam_munoz607 changed synteny to Gene 42 seems to match Mashely and Hyperion’s membrane protein in location and size. at 2020-01-18 20:23:48.0

Gene Number: 43
dcedwards Added HHPRED Evidence Accession: PF10805.8 Description: DUF2730 ; Protein of unknown function (DUF2730) Query Range: (34-124) Target Range: (4-87) at 2020-05-06 17:22:39.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-06 02:35:04.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 00:53:11.0
dcedwards Added HHPRED Evidence Accession: PF10805.8 Description: DUF2730 ; Protein of unknown function (DUF2730) Query Range: (34-124) Target Range: (4-87) at 2020-05-05 00:46:10.0
dcedwards Added TmHmm evidence at 2020-05-05 00:46:10.0
dcedwards Added TOPCONS evidence at 2020-05-05 00:46:10.0
dcedwards Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-05-04 20:37:38.0
dcedwards changed the gene function to NKF at 2020-05-04 20:37:38.0
chloeogrady Added Phages DB Evidence Phage Name: Hyperion Function: membrane protein at 2020-01-30 03:43:12.0
dcedwards changed the gene function to membrane protein at 2020-01-27 15:22:52.0
sam_munoz607 Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-27 00:36:27.0
sam_munoz607 changed note to phagesdb function frequency and phagesdb blast do not match with HHpred’s results. at 2020-01-27 00:36:27.0
sam_munoz607 changed synteny to Phagesdb blast shows the highest probability bacteriophage (Casend) is an unknown gene. HHpred has an 86% probability of being a zinc binding protein. at 2020-01-27 00:36:27.0
aequirl changed the coding capacity to yes at 2020-01-22 17:27:13.0
aequirl Removed Phages DB Evidence Phage Name: Squash Function: membrane protein at 2020-01-22 17:25:23.0
aequirl Removed Phages DB Evidence Phage Name: Mashley Function: membrane protein at 2020-01-22 17:25:23.0
sam_munoz607 Added HHPRED Evidence Accession: 3MQ9_D Description: Bone marrow stromal antigen 2; HIV, ANTIVIRAL PROTEIN; 2.8A {Escherichia coli, Homo sapiens} Query Range: (68-146) Target Range: (370-461) at 2020-01-22 15:39:40.0
sam_munoz607 changed the coding capacity to no at 2020-01-22 15:39:40.0
sam_munoz607 changed starterator analysis to SS at 2020-01-22 15:37:02.0
chloeogrady changed note to The percent identity of the other bacteriophages (Squash, Mashley, and Hyperion) is about 68.8%. On the NCBI webpage, it’s about 69.3%. Because of how similar these percentages are, I can interpret that this is a membrane protein. Once again, HHpred has not provided data that matched the data given on PECAAN. at 2020-01-18 21:11:45.0
chloeogrady changed synteny to Based on the way this gene fits into the genetic map, it looks like it would be a membrane protein or a binding protein. Based on a comparison of bacteriophages Squash, Mashley, and Hyperion, this gene can be classified as a membrane protein. at 2020-01-18 21:11:45.0
chloeogrady Added Phages DB Evidence Phage Name: Hyperion Function: membrane protein at 2020-01-18 20:55:51.0
chloeogrady Added Phages DB Evidence Phage Name: Mashley Function: membrane protein at 2020-01-18 20:55:51.0
chloeogrady Added Phages DB Evidence Phage Name: Squash Function: membrane protein at 2020-01-18 20:55:51.0
chloeogrady Added NCBI BLAST Evidence Accession: AWN03557 Query Range: (1-151) Target Range: (1-153) at 2020-01-18 20:55:51.0
chloeogrady changed the gene function to Membrane Protein at 2020-01-18 20:55:51.0

Gene Number: 44
dcedwards Added HHPRED Evidence Accession: PF13495.6 Description: Phage_int_SAM_4 ; Phage integrase, N-terminal SAM-like domain Query Range: (1-48) Target Range: (37-84) at 2020-05-06 17:24:09.0
dcedwards changed note to Possible integrase. at 2020-05-06 17:24:09.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 00:53:28.0
aequirl Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 17:54:19.0
aequirl Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-22 17:54:19.0
aequirl Added NCBI BLAST Evidence Accession: AWN03558 Query Range: (1-63) Target Range: (1-65) at 2020-01-22 17:54:19.0
kristinsefcik Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-22 15:53:27.0
aequirl changed starterator analysis to SS at 2020-01-18 23:40:58.0
aequirl changed the gene function to NKF at 2020-01-18 20:32:42.0
aequirl changed the coding capacity to yes at 2020-01-18 20:32:42.0
aequirl changed synteny to NCBI blastp showed hypothetical protein while PECAAN and HHpred showed unknown function. at 2020-01-18 20:32:42.0

Gene Number: 45
dcedwards changed the gene function to holin at 2020-05-06 17:29:25.0
dcedwards changed synteny to Transmembrane prediction also shows it is membrane protein. There is a frequency % of membrane protein of 16% for subcluster AS2, 11% for subcluster EB, and 10% for subcluster DC1. Holin next to lysin. at 2020-05-06 17:29:25.0
dcedwards Added NCBI BLAST Evidence Accession: AXH47317 Query Range: (137-222) Target Range: (10-106) at 2020-05-06 17:28:51.0
dcedwards Added HHPRED Evidence Accession: PF16945.5 Description: Phage_r1t_holin ; Putative lactococcus lactis phage r1t holin Query Range: (153-205) Target Range: (11-55) at 2020-05-06 17:28:51.0
dcedwards Added HHPRED Evidence Accession: PF04791.16 Description: LMBR1 ; LMBR1-like membrane protein Query Range: (13-97) Target Range: (121-210) at 2020-05-06 17:28:51.0
dcedwards Removed HHPRED Evidence Accession: PF12270.8 Description: Cyt_c_ox_IV ; Cytochrome c oxidase subunit IV Query Range: (8-71) Target Range: (1-63) at 2020-05-06 17:28:51.0
dcedwards Added HHPRED Evidence Accession: PF12270.8 Description: Cyt_c_ox_IV ; Cytochrome c oxidase subunit IV Query Range: (8-71) Target Range: (1-63) at 2020-05-06 17:25:13.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-06 02:35:21.0
dcedwards Removed HHPRED Evidence Accession: PF12270.8 Description: Cyt_c_ox_IV ; Cytochrome c oxidase subunit IV Query Range: (8-71) Target Range: (1-63) at 2020-05-05 18:04:32.0
dcedwards changed the gene function to membrane protein at 2020-05-05 18:04:32.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-05 17:40:11.0
dcedwards Added HHPRED Evidence Accession: 6HWH_X Description: Ubiquinol-cytochrome c reductase iron-sulfur subunit; Membrane Protein, Cryo-EM, Respiratory supercomplex; HET: CDL, HAS, HEM, MQ9, HEC; 3.3A {Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)} Query Range: (8-71) Target Range: (1-70) at 2020-05-05 17:40:11.0
dcedwards Added TOPCONS evidence at 2020-05-05 17:40:11.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-05 00:54:23.0
dcedwards Added HHPRED Evidence Accession: PF12270.8 Description: Cyt_c_ox_IV ; Cytochrome c oxidase subunit IV Query Range: (8-71) Target Range: (1-63) at 2020-05-05 00:54:23.0
dcedwards changed the gene function to NKF at 2020-05-05 00:54:23.0
aequirl Removed Phages DB Evidence Phage Name: Hyperion Function: membrane protein at 2020-01-22 17:45:36.0
aequirl Removed Phages DB Evidence Phage Name: Brahms Function: membrane protein at 2020-01-22 17:45:36.0
aequirl Removed Phages DB Evidence Phage Name: Bernstein Function: membrane protein at 2020-01-22 17:45:36.0
aequirl Removed Phages DB Evidence Phage Name: Armstrong Function: membrane protein at 2020-01-22 17:45:36.0
aequirl changed the coding capacity to yes at 2020-01-22 17:45:36.0
kristinsefcik Removed Phages DB Evidence Phage Name: OneinaGillian Function: membrane protein at 2020-01-22 16:01:25.0
kristinsefcik Removed Phages DB Evidence Phage Name: FuzzBuster Function: membrane protein at 2020-01-22 16:01:25.0
kristinsefcik Removed Phages DB Evidence Phage Name: Mashley Function: membrane protein at 2020-01-22 16:01:25.0
kristinsefcik Removed Phages DB Evidence Phage Name: RubyRalph Function: membrane protein at 2020-01-22 16:01:25.0
kristinsefcik Removed Phages DB Evidence Phage Name: Hendrix Function: membrane protein at 2020-01-22 16:01:25.0
kristinsefcik Removed Phages DB Evidence Phage Name: Mashley Function: membrane protein at 2020-01-22 16:01:25.0
kristinsefcik Removed Phages DB Evidence Phage Name: Constance Function: membrane protein at 2020-01-22 16:01:25.0
kristinsefcik Removed Phages DB Evidence Phage Name: Celaena Function: membrane protein at 2020-01-22 16:01:25.0
kristinsefcik Added NCBI BLAST Evidence Accession: AWN04665 Query Range: (1-245) Target Range: (1-242) at 2020-01-22 16:01:25.0
kristinsefcik changed starterator analysis to SS at 2020-01-22 16:01:25.0
kristinsefcik changed synteny to Transmembrane prediction also shows it is membrane protein. There is a frequency % of membrane protein of 16% for subcluster AS2, 11% for subcluster EB, and 10% for subcluster DC1. at 2020-01-18 20:37:16.0
kristinsefcik Added Phages DB Evidence Phage Name: Squash Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: Hyperion Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: OneinaGillian Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: FuzzBuster Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: Mashley Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: Hendrix Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: RubyRalph Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: Mashley Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: Constance Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: Celaena Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: Armstrong Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: Bernstein Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik Added Phages DB Evidence Phage Name: Brahms Function: membrane protein at 2020-01-18 19:48:57.0
kristinsefcik changed the gene function to membrane protein at 2020-01-18 19:48:57.0
kristinsefcik changed note to Many of the similar phages have membrane protein functions. at 2020-01-18 19:48:57.0
kristinsefcik Added TmHmm evidence at 2020-01-18 19:48:57.0
kristinsefcik changed synteny to Transmembrane prediction also shows it is membrane protein. at 2020-01-18 19:48:57.0

Gene Number: 46
dcedwards Added HHPRED Evidence Accession: 4FDY_A Description: Similar to lipoprotein, NLP/P60 family; Slt/lysozyme-like muramidase, NlpC/P60 LD endopeptidase; HET: OCS, MSE; 2.23A {Staphylococcus aureus subsp. aureus} Query Range: (1-123) Target Range: (192-312) at 2020-05-06 17:37:43.0
dcedwards changed the gene function to lysin A, N-acetylmuramoyl-L-alanine amidase domain at 2020-05-06 17:37:43.0
dcedwards Added HHPRED Evidence Accession: 5T1Q_A Description: Adenosylhomocysteinase (E.C.3.3.1.1); N-acetylmuramoyl-L-alanine Amidase, CSGID, Structural Genomics; HET: PGE, MSE; 2.15A {Staphylococcus aureus (strain NCTC 8325)} Query Range: (17-94) Target Range: (249-333) at 2020-05-06 17:36:27.0
dcedwards Added HHPRED Evidence Accession: 5UDN_B Description: Phage-associated cell wall hydrolase; lysin, d-alanyl-l-alanine endopeptidase, CHAP domain; HET: GOL; 1.971A {Streptococcus pyogenes MGAS5005} Query Range: (1-164) Target Range: (4-197) at 2020-05-06 17:35:14.0
dcedwards changed the gene function to lysin a, at 2020-05-06 17:35:14.0
dcedwards changed synteny to This gene is unknown because the databases were not lining up similarly, though there is somewhat a strong percentage that it is a lysin A protein. In addition, adjacent to a possible holin. at 2020-05-06 17:31:00.0
dcedwards changed the gene function to lysin A at 2020-05-06 17:30:00.0
faith changed the coding capacity to yes at 2020-05-06 17:21:02.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: lysin A at 2020-05-05 01:19:57.0
dcedwards Added HHPRED Evidence Accession: 4Q4G_X Description: Peptidoglycan endopeptidase RipA (E.C.3.4.-.-); alpha-beta, cell wall hydrolase, HYDROLASE; 0.97A {Mycobacterium tuberculosis} Query Range: (1-118) Target Range: (344-472) at 2020-05-05 01:19:57.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: lysin A at 2020-05-04 20:40:35.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03560 Query Range: (1-175) Target Range: (3-174) at 2020-05-04 20:40:35.0
gspotz changed the gene function to NKF at 2020-01-18 21:03:17.0
gspotz changed note to High chance that this gene is a lysin A since membrane protein comes before it and Blastp shows a somewhat strong percentage that it is a lysin A protein. at 2020-01-18 21:03:17.0
gspotz changed the coding capacity to no at 2020-01-18 21:03:17.0
gspotz changed synteny to This gene is unknown because the databases were not lining up similarly, though there is somewhat a strong percentage that it is a lysin A protein. at 2020-01-18 21:03:17.0

Gene Number: 47
dcedwards Added HHPRED Evidence Accession: PF11352.8 Description: DUF3155 ; Protein of unknown function (DUF3155) Query Range: (4-34) Target Range: (5-55) at 2020-05-06 17:42:28.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-06 02:36:22.0
dcedwards Added HHPRED Evidence Accession: PF03237.15 Description: Terminase_6 ; Terminase-like family Query Range: (149-165) Target Range: (90-106) at 2020-05-05 01:12:33.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 01:00:41.0
tannerjtaylor changed the gene function to NKF at 2020-01-20 03:25:29.0
tannerjtaylor changed note to HHpred gives a 93.96% chance that this gene is a DEAD-box helicase. However, this requires different genes to preceed than those in fizzles. All reports conflict, with different genes being probable. at 2020-01-20 03:25:29.0
tannerjtaylor changed synteny to The genes before and after this gene are very similar to that of Hyperion. The format is the same for these two, as well as Mashley. at 2020-01-20 03:25:29.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-20 03:01:11.0
tannerjtaylor Added NCBI BLAST Evidence Accession: AWN03561 Query Range: (1-164) Target Range: (1-164) at 2020-01-20 03:01:11.0
tannerjtaylor Added HHPRED Evidence Accession: cd00268 Description: DEADc; DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. Query Range: (101-144) Target Range: (8-52) at 2020-01-20 03:01:11.0
tannerjtaylor changed the coding capacity to yes at 2020-01-20 03:01:11.0
tannerjtaylor changed starterator analysis to SS at 2020-01-20 03:01:11.0

Gene Number: 48
dcedwards Added HHPRED Evidence Accession: cd08071 Description: MPN_DUF2466; Mov34/MPN/PAD-1 family. Mov34 DUF2466 (also known as DNA repair protein RadC) domain of unknown function contains the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. Query Range: (1-18) Target Range: (64-81) at 2020-05-06 17:42:37.0
dcedwards Added HHPRED Evidence Accession: 2QLC_A Description: DNA repair protein radC homolog; DNA repair protein, RadC, MCSG; 2.3A {Chlorobium tepidum TLS} Query Range: (1-18) Target Range: (72-89) at 2020-05-05 01:45:07.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-05 01:00:54.0
skyler Added NCBI BLAST Evidence Accession: QED11863 Query Range: (1-100) Target Range: (1-100) at 2020-01-27 04:31:17.0
skyler Added HHPRED Evidence Accession: cd08071 Description: MPN_DUF2466; Mov34/MPN/PAD-1 family. Mov34 DUF2466 (also known as DNA repair protein RadC) domain of unknown function contains the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. Query Range: (1-18) Target Range: (64-81) at 2020-01-27 04:31:17.0
skyler changed the coding capacity to yes at 2020-01-27 04:31:17.0
skyler changed starterator analysis to SS at 2020-01-27 04:31:17.0
gvazquez Added Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-01-18 21:18:41.0
gvazquez changed the gene function to NKF at 2020-01-18 21:18:41.0
gvazquez changed note to Base on the NCBI blast there is a function of desaturase at 57.69 percent, but on HHpred there is a high probability that the function is not known at 82.17 % probability. desaturase does not appear on HHpred. at 2020-01-18 21:18:41.0
gvazquez changed synteny to Base on the phages db blast there are unknown function base on the phages given. OneinaGillian is fairly similar to it base on the phamerator. The sequence lenegth is similar and they are both backwards. at 2020-01-18 21:18:41.0

Gene Number: 49
dcedwards Added HHPRED Evidence Accession: 2GUZ_L Description: Mitochondrial import inner membrane translocase; DnaJ-fold, CHAPERONE, PROTEIN TRANSPORT; HET: FLC; 2.0A {Saccharomyces cerevisiae} Query Range: (151-218) Target Range: (1-59) at 2020-05-06 17:42:49.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-06 02:36:46.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: DnaJ-like chaperonin at 2020-05-05 01:13:19.0
dcedwards Added NCBI BLAST Evidence Accession: QIG59059 Query Range: (1-219) Target Range: (1-207) at 2020-05-05 01:13:19.0
gvazquez Added Phages DB Evidence Phage Name: RubyRalph Function: chaperonin, DnaJ-like at 2020-01-27 16:29:13.0
gvazquez Added HHPRED Evidence Accession: 2GUZ_J Description: Mitochondrial import inner membrane translocase; DnaJ-fold, CHAPERONE, PROTEIN TRANSPORT; HET: FLC; 2.0A {Saccharomyces cerevisiae} Query Range: (151-218) Target Range: (1-59) at 2020-01-27 16:29:13.0
gvazquez changed the gene function to chaperonin, DnaJ-like at 2020-01-27 16:29:13.0
gvazquez changed note to There’s a high possibility that gene 48 is a chaperonin accoding to HH pred and NCBI blast. HH pred indicates a 98.28% probability and NCBI blast shows 52.06% identity to chaperonin. at 2020-01-27 16:29:13.0
gvazquez changed synteny to On Phamerator, rudyRalph indicates a closer identity of gene length compare to other genes below. at 2020-01-27 16:29:13.0
skyler changed note to Could possibly be chaperonin, DnaJ-like. RubyRalph, cluster EG, has a gene that lines up with this on with this function. Some NCBI results supported this. The top hits on HHpred supported this as well. at 2020-01-20 06:26:19.0
skyler changed synteny to On Phamerator, the gene that lines up with this one in the other cluster EG phages have an unknown function except for RubyRalph. The top hits on NCBI are hypothetical proteins. at 2020-01-20 06:26:19.0
skyler changed the gene function to NKF at 2020-01-20 06:15:04.0
skyler changed note to Could possibly be chaperonin, DnaJ-like. at 2020-01-20 06:15:04.0
skyler changed the coding capacity to yes at 2020-01-20 06:01:50.0
skyler changed starterator analysis to SS at 2020-01-20 06:01:50.0

Gene Number: 50
dcedwards Added HHPRED Evidence Accession: 2YF4_C Description: MAZG-LIKE NUCLEOSIDE TRIPHOSPHATE PYROPHOSPHOHYDROLASE (E.C.3.6.1.19); HYDROLASE, DIMERIC DUTPASE; HET: GOL, SO4; 1.7A {DEINOCOCCUS RADIODURANS} Query Range: (1-132) Target Range: (11-149) at 2020-05-06 17:43:17.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: MazG-like nucleotide pyrophosphohydrolase at 2020-05-06 02:36:58.0
dcedwards Added HHPRED Evidence Accession: 2YF4_C Description: MAZG-LIKE NUCLEOSIDE TRIPHOSPHATE PYROPHOSPHOHYDROLASE (E.C.3.6.1.19); HYDROLASE, DIMERIC DUTPASE; HET: GOL, SO4; 1.7A {DEINOCOCCUS RADIODURANS} Query Range: (1-132) Target Range: (11-149) at 2020-05-05 01:13:37.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: MazG-like nucleotide pyrophosphohydrolase at 2020-05-05 01:01:59.0
dcedwards Added CDD Evidence Accession: cd11545 Query Range: (10-125) Target Range: (5-112) at 2020-05-05 01:01:59.0
gvazquez changed note to HH pred indicates a 99.94% probability of MazG- like nucleotide pryphosphydrolase. NCBI blast did indicate a similarity. at 2020-01-27 22:17:09.0
gvazquez changed synteny to Frequency is at 48% similarities at 2020-01-27 22:17:09.0
skyler Removed Phages DB Evidence Phage Name: Leaf Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-27 07:16:16.0
skyler Removed Phages DB Evidence Phage Name: Dewdrop Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-27 07:16:16.0
skyler Removed Phages DB Evidence Phage Name: Hendrix Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-27 07:16:16.0
skyler Removed Phages DB Evidence Phage Name: Mollymur Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-27 07:16:16.0
skyler Removed Phages DB Evidence Phage Name: Camille Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-27 07:16:16.0
skyler Removed Phages DB Evidence Phage Name: Schubert Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-27 07:16:16.0
skyler Added CDD Evidence Accession: cd11545 Query Range: (10-125) Target Range: (5-112) at 2020-01-27 07:16:16.0
skyler Added NCBI BLAST Evidence Accession: WP_042980443 Query Range: (10-135) Target Range: (14-135) at 2020-01-27 07:16:16.0
skyler Added HHPRED Evidence Accession: 2YF4_F Description: MAZG-LIKE NUCLEOSIDE TRIPHOSPHATE PYROPHOSPHOHYDROLASE (E.C.3.6.1.19); HYDROLASE, DIMERIC DUTPASE; HET: GOL, SO4; 1.7A {DEINOCOCCUS RADIODURANS} Query Range: (1-128) Target Range: (11-145) at 2020-01-27 07:16:16.0
cebutler changed the coding capacity to yes at 2020-01-22 16:26:27.0
cebutler changed starterator analysis to SS at 2020-01-22 16:26:27.0
rebbabcock1 Added Phages DB Evidence Phage Name: RubyRalph Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-18 20:24:55.0
rebbabcock1 Added Phages DB Evidence Phage Name: Dewdrop Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-18 20:24:55.0
rebbabcock1 Added Phages DB Evidence Phage Name: Leaf Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-18 20:24:55.0
rebbabcock1 Added Phages DB Evidence Phage Name: Hendrix Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-18 20:24:55.0
rebbabcock1 Added Phages DB Evidence Phage Name: Mollymur Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-18 20:24:55.0
rebbabcock1 Added Phages DB Evidence Phage Name: Camille Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-18 20:24:55.0
rebbabcock1 Added Phages DB Evidence Phage Name: Schubert Function: MazG-like nucleotide pyrophosphohydrolase at 2020-01-18 20:24:55.0
rebbabcock1 changed the gene function to MazG-like nucleotide pyrophosphohydrolase at 2020-01-18 20:24:55.0
rebbabcock1 changed synteny to Frequency is at 48% similarities and at 2020-01-18 20:24:55.0

Gene Number: 51
dcedwards Added NCBI BLAST Evidence Accession: QHJ75255 Query Range: (1-281) Target Range: (1-282) at 2020-05-06 17:46:14.0
dcedwards Added HHPRED Evidence Accession: 1D3Y_B Description: DNA TOPOISOMERASE VI (E.C.5.99.1.3) A; TOPOISOMERASE VI, DNA BINDING PROTEIN; 2.0A {Methanocaldococcus jannaschii} SCOP: e.12.1.1 Query Range: (10-269) Target Range: (6-296) at 2020-05-06 17:46:14.0
dcedwards changed note to This gene is an orpham, so there is no data. Possible topoisomerase at 2020-05-06 17:46:14.0
dcedwards Added Phages DB Evidence Phage Name: BatStarr Function: function unknown at 2020-05-06 02:37:08.0
dcedwards Added HHPRED Evidence Accession: 1D3Y_A Description: DNA TOPOISOMERASE VI (E.C.5.99.1.3) A; TOPOISOMERASE VI, DNA BINDING PROTEIN; 2.0A {Methanocaldococcus jannaschii} SCOP: e.12.1.1 Query Range: (10-269) Target Range: (6-296) at 2020-05-05 01:14:01.0
dcedwards Added Phages DB Evidence Phage Name: BatStarr Function: function unknown at 2020-05-05 01:02:13.0
skyler Added Phages DB Evidence Phage Name: BatStarr Function: function unknown at 2020-01-27 06:37:14.0
skyler Added NCBI BLAST Evidence Accession: WP_025157260 Query Range: (1-303) Target Range: (1-303) at 2020-01-27 06:37:14.0
skyler Added HHPRED Evidence Accession: 1D3Y_A Description: DNA TOPOISOMERASE VI (E.C.5.99.1.3) A; TOPOISOMERASE VI, DNA BINDING PROTEIN; 2.0A {Methanocaldococcus jannaschii} SCOP: e.12.1.1 Query Range: (10-269) Target Range: (6-296) at 2020-01-27 06:37:14.0
skyler changed the coding capacity to yes at 2020-01-27 06:37:14.0
cebutler changed the gene function to NKF at 2020-01-18 20:52:54.0
cebutler changed note to This gene is an orpham, so there is no data at 2020-01-18 20:52:54.0
cebutler changed synteny to There are several reasons for why the function is unknown. at 2020-01-18 20:52:54.0
cebutler changed the gene function to unknown at 2020-01-18 20:00:46.0

Gene Number: 52
dcedwards Added HHPRED Evidence Accession: 4IC1_D Description: Uncharacterized protein; Cas4, CRISPR, MCSG, Exonuclease, PSI-Biology; HET: MN, SF4; 2.35A {Sulfolobus solfataricus} Query Range: (20-293) Target Range: (5-206) at 2020-05-06 17:47:01.0
faith changed the coding capacity to yes at 2020-05-06 17:22:19.0
dcedwards Removed Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-06 02:37:24.0
dcedwards Added HHPRED Evidence Accession: PF12684.7 Description: DUF3799 ; PDDEXK-like domain of unknown function (DUF3799) Query Range: (44-285) Target Range: (12-235) at 2020-05-05 01:46:41.0
dcedwards changed the gene function to Cas4 family exonuclease at 2020-05-05 01:23:51.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: exonuclease at 2020-05-05 01:23:42.0
dcedwards Added NCBI BLAST Evidence Accession: NBO34627 Query Range: (16-193) Target Range: (3-163) at 2020-05-05 01:23:03.0
dcedwards Removed NCBI BLAST Evidence Accession: AWN04672 Query Range: (1-734) Target Range: (1-718) at 2020-05-05 01:23:03.0
dcedwards Added HHPRED Evidence Accession: 4IC1_D Description: Uncharacterized protein; Cas4, CRISPR, MCSG, Exonuclease, PSI-Biology; HET: MN, SF4; 2.35A {Sulfolobus solfataricus} Query Range: (20-293) Target Range: (5-206) at 2020-05-05 01:23:03.0
dcedwards changed note to Major capside protein has a frequency of 13% as well as tape measure protein at 13%; however, tape measure protein is already identified as gene 37. Hypothetical protein also came up with 99% probability.
Possible Cas4 at 2020-05-05 01:23:03.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-05 01:02:26.0
mcrew99 Added NCBI BLAST Evidence Accession: AWN04672 Query Range: (1-734) Target Range: (1-718) at 2020-01-29 16:03:38.0
mcrew99 changed note to Major capside protein has a frequency of 13% as well as tape measure protein at 13%; however, tape measure protein is already identified as gene 37. Hypothetical protein also came up with 99% probability. at 2020-01-29 16:03:38.0
mcrew99 changed synteny to All the other phages in the cluster have a similar gene that is also of unknown function. This seems enough evidence to mark it as NKF. at 2020-01-29 16:03:38.0
sgconger Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-27 23:40:39.0
sgconger Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-27 23:40:39.0
sgconger Removed Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-27 23:40:39.0
sgconger Removed Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-27 23:40:39.0
sgconger Removed Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-27 23:40:39.0
sgconger Removed Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-01-27 23:40:39.0
sgconger Removed Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-27 23:40:39.0
sgconger Removed Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-27 23:40:39.0
sgconger Added HHPRED Evidence Accession: PF10926.8 Description: DUF2800 ; Protein of unknown function (DUF2800) Query Range: (39-416) Target Range: (3-352) at 2020-01-27 23:40:39.0
mcrew99 changed note to Major capside protein has a frequency of 13% as well as tape measure protein at 13%; however, tape measure protein is already identified as gene 37. at 2020-01-18 21:25:47.0
mcrew99 changed the coding capacity to no at 2020-01-18 21:25:47.0
sgconger Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-18 21:20:35.0
sgconger Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-18 21:20:35.0
sgconger Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-18 21:20:35.0
sgconger Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-18 21:20:35.0
sgconger Added Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-18 21:20:35.0
sgconger Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-18 21:20:35.0
sgconger Added Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-01-18 21:20:35.0
sgconger Added Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-18 21:20:35.0
sgconger Added Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-18 21:20:35.0
sgconger changed the gene function to NKF at 2020-01-18 21:14:41.0
sgconger changed synteny to NKF at 2020-01-18 21:14:41.0
sgconger changed starterator analysis to SS at 2020-01-18 21:14:41.0

Gene Number: 53
dcedwards Added HHPRED Evidence Accession: 1PGR_F Description: GRANULOCYTE COLONY-STIMULATING FACTOR/G-CSF RECEPTOR COMPLEX; CLASS1 CYTOKINE, HEMATOPOIETIC RECEPTOR, SIGNAL; 3.5A {Homo sapiens} SCOP: b.1.2.1 Query Range: (20-61) Target Range: (1-42) at 2020-05-06 17:47:27.0
dcedwards Added Phages DB Evidence Phage Name: Bmoc Function: hydrolase at 2020-05-06 02:37:48.0
dcedwards Added HHPRED Evidence Accession: 2GBS_A Description: DUF589; alpha-beta, RpR3, NESG, Structural Genomics; NMR {Rhodopseudomonas palustris} SCOP: b.122.1.8 Query Range: (14-49) Target Range: (107-142) at 2020-05-05 01:33:43.0
dcedwards Added Phages DB Evidence Phage Name: Bmoc Function: hydrolase at 2020-05-05 01:04:08.0
dcedwards changed the gene function to NKF at 2020-05-05 01:04:08.0
mcrew99 changed the coding capacity to yes at 2020-01-26 23:30:57.0
sgconger Added Phages DB Evidence Phage Name: CaptainKirk2 Function: minor tail protein at 2020-01-22 15:49:30.0
sgconger Added HHPRED Evidence Accession: 2GBS_A Description: DUF589; alpha-beta, RpR3, NESG, Structural Genomics; NMR {Rhodopseudomonas palustris} SCOP: b.122.1.8 Query Range: (14-49) Target Range: (107-142) at 2020-01-22 15:49:30.0
mcrew99 changed the gene function to minor tail protein at 2020-01-18 21:38:14.0
mcrew99 changed note to Frequency 100% for minor tail protein. Tape measure protein was also given for the blast; however, this protein was already identified. at 2020-01-18 21:38:14.0
mcrew99 changed the coding capacity to no at 2020-01-18 21:38:14.0
mcrew99 changed synteny to Minor tail protein, this gene is not on the other closely related phages, it seems to be an insertion. at 2020-01-18 21:38:14.0
mcrew99 changed starterator analysis to SS at 2020-01-18 21:38:14.0

Gene Number: 54
dcedwards Added HHPRED Evidence Accession: 1H2I_M Description: DNA REPAIR PROTEIN RAD52 HOMOLOG; DNA-BINDING PROTEIN, DNA REPAIR, DNA; 2.7A {HOMO SAPIENS} SCOP: d.50.1.3 Query Range: (21-207) Target Range: (22-207) at 2020-05-06 17:47:59.0
faith changed the coding capacity to yes at 2020-05-06 17:23:11.0
dcedwards changed note to NCBI major tail protein is 59%. Phagedb is majority tape measure protein. HHpred is 99.1% homologous-pairing domain of Rad52 recombinase and 99.9% on DNA repair protein. The Escherichia coli RecA protein complements recombination defective phenotype of the Saccharomyces cerevisiae rad52 mutant cells. at 2020-05-05 01:38:53.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: DNA recombinase at 2020-05-05 01:38:02.0
dcedwards Added NCBI BLAST Evidence Accession: QED11867 Query Range: (1-332) Target Range: (1-320) at 2020-05-05 01:38:02.0
dcedwards Added HHPRED Evidence Accession: 1H2I_M Description: DNA REPAIR PROTEIN RAD52 HOMOLOG; DNA-BINDING PROTEIN, DNA REPAIR, DNA; 2.7A {HOMO SAPIENS} SCOP: d.50.1.3 Query Range: (21-207) Target Range: (22-207) at 2020-05-05 01:38:02.0
dcedwards changed the gene function to RecA-like DNA recombinase at 2020-05-05 01:38:02.0
stephaniegarcia changed the gene function to major tail protein at 2020-01-18 21:30:14.0
stephaniegarcia changed note to NCBI major tail protein is 59%. Phagedb is majority tape measure protein. HHpred is 99.1% homologous-pairing domain of Rad52 recombinase and 99.9% on DNA repair protein. at 2020-01-18 21:30:14.0
stephaniegarcia changed the coding capacity to no at 2020-01-18 21:30:14.0
stephaniegarcia changed synteny to Phamerator placement is similar to the major tail protein. at 2020-01-18 21:30:14.0

Gene Number: 55
dcedwards Added HHPRED Evidence Accession: PF13392.6 Description: HNH_3 ; HNH endonuclease Query Range: (45-89) Target Range: (1-45) at 2020-05-06 17:48:55.0
dcedwards Added HHPRED Evidence Accession: 1A73_A Description: INTRON-ENCODED ENDONUCLEASE I-PPOI/DNA COMPLEX; COMPLEX (HOMING ENDONUCLEASE-DNA), INTRON, ZINC; 1.8A {Physarum polycephalum} SCOP: d.4.1.3 Query Range: (1-153) Target Range: (1-157) at 2020-05-06 17:48:55.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: HNH endonuclease at 2020-05-06 02:38:06.0
dcedwards Added HHPRED Evidence Accession: 1A73_A Description: INTRON-ENCODED ENDONUCLEASE I-PPOI/DNA COMPLEX; COMPLEX (HOMING ENDONUCLEASE-DNA), INTRON, ZINC; 1.8A {Physarum polycephalum} SCOP: d.4.1.3 Query Range: (1-153) Target Range: (1-157) at 2020-05-05 01:39:17.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: HNH endonuclease at 2020-05-05 01:15:32.0
mcrew99 changed note to Changed to HNH endonuclease to reflect the evidence presented in the google doc, phagesdb, blast, and HHpred. According to the HHPred table, probability was 98.7 for HNH endonuclease. at 2020-01-26 23:35:16.0
mcrew99 changed the coding capacity to yes at 2020-01-26 23:35:16.0
sgconger Removed NCBI BLAST Evidence Accession: AWN04674 Query Range: (1-172) Target Range: (1-172) at 2020-01-26 22:55:22.0
sgconger Removed HHPRED Evidence Accession: 1A73_A Description: INTRON-ENCODED ENDONUCLEASE I-PPOI/DNA COMPLEX; COMPLEX (HOMING ENDONUCLEASE-DNA), INTRON, DNA; 1.8A {Physarum polycephalum} SCOP: d.4.1.3 Query Range: (1-153) Target Range: (1-157) at 2020-01-26 22:55:22.0
j0ce1yn changed note to Changed to HNH endonuclease to reflect the evidence presented in the google doc, phagesdb, blast, and HHpred. Although % identity was ~60%, the E-value and % alignment were a stronger indicator. at 2020-01-22 16:38:22.0
j0ce1yn Added NCBI BLAST Evidence Accession: AWN04674 Query Range: (1-172) Target Range: (1-172) at 2020-01-22 16:36:40.0
j0ce1yn changed the gene function to HNH endonuclease at 2020-01-22 16:36:40.0
j0ce1yn changed note to Changed to HNH endonuclease to reflect the evidence presented in the google doc, phagesdb, blast, and HHpred. at 2020-01-22 16:36:40.0
j0ce1yn Added Phages DB Evidence Phage Name: RubyRalph Function: HNH endonuclease at 2020-01-22 16:31:40.0
j0ce1yn Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 16:31:40.0
j0ce1yn Removed Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-22 16:31:40.0
j0ce1yn Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-22 16:31:40.0
j0ce1yn Removed Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-22 16:31:40.0
j0ce1yn Removed Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-22 16:31:40.0
j0ce1yn Added NCBI BLAST Evidence Accession: AYB70170 Query Range: (1-179) Target Range: (1-178) at 2020-01-22 16:31:40.0
j0ce1yn Added HHPRED Evidence Accession: 1A73_A Description: INTRON-ENCODED ENDONUCLEASE I-PPOI/DNA COMPLEX; COMPLEX (HOMING ENDONUCLEASE-DNA), INTRON, DNA; 1.8A {Physarum polycephalum} SCOP: d.4.1.3 Query Range: (1-153) Target Range: (1-157) at 2020-01-22 16:31:40.0
j0ce1yn Added HHPRED Evidence Accession: PF13392.6 Description: HNH_3 ; HNH endonuclease Query Range: (45-89) Target Range: (1-45) at 2020-01-22 16:31:40.0
j0ce1yn changed the coding capacity to no at 2020-01-22 16:31:40.0
joannag Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-21 18:54:10.0
joannag Added Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-21 18:54:10.0
joannag Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-21 18:54:10.0
joannag Added Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-21 18:54:10.0
joannag Added Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-21 18:54:10.0
joannag changed the gene function to NKF at 2020-01-21 18:54:10.0
joannag changed synteny to This gene in blast has a precent identify at 60% as HNH endonuclease but in HHpred it contains another protein function at 2020-01-21 18:54:10.0
joannag changed starterator analysis to SS at 2020-01-21 18:54:10.0

Gene Number: 56
dcedwards Added HHPRED Evidence Accession: 1HJR_D Description: HOLLIDAY JUNCTION RESOLVASE (E.C.3.1.22.4) (RUVC); SITE-SPECIFIC RECOMBINASE; 2.5A {Escherichia coli} SCOP: c.55.3.6 Query Range: (5-172) Target Range: (1-155) at 2020-05-06 17:49:08.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: RuvC-like resolvase at 2020-05-05 01:39:35.0
dcedwards Added CDD Evidence Accession: COG0817 Query Range: (56-163) Target Range: (40-144) at 2020-05-05 01:16:12.0
dcedwards Added HHPRED Evidence Accession: 4KTW_A Description: RuvC endonuclease; endonuclease, DNA junctions, replication, recombination; 1.68A {Lactococcus phage bIL67} Query Range: (4-169) Target Range: (1-160) at 2020-05-05 01:16:12.0
joannag Added Phages DB Evidence Phage Name: Hyperion Function: RuvC-like resolvase at 2020-01-23 15:47:11.0
joannag Added CDD Evidence Accession: COG0817 Query Range: (56-163) Target Range: (40-144) at 2020-01-23 15:47:11.0
joannag Added NCBI BLAST Evidence Accession: AWN03568 Query Range: (5-192) Target Range: (5-190) at 2020-01-23 15:47:11.0
joannag Added HHPRED Evidence Accession: 1HJR_C Description: HOLLIDAY JUNCTION RESOLVASE (E.C.3.1.22.4) (RUVC); SITE-SPECIFIC RECOMBINASE; 2.5A {Escherichia coli} SCOP: c.55.3.6 Query Range: (5-172) Target Range: (1-155) at 2020-01-23 15:47:11.0
j0ce1yn changed synteny to NCBI found E-values close to 0.0 for RuvC-like resolvase in Hyperion, Squash, and OneinaGillian. Pharmerator showed gene in a similar location as other phages from the same class; Squash: gene 56, OneinaGillian: gene 61, Mashley: gene 52, and Hyperion: gene 53, RubyRalph: gene 59. HHPred visualization was majority red along with hitlist showing resolvase. at 2020-01-20 05:28:27.0
j0ce1yn changed the gene function to RuvC-like resolvase at 2020-01-18 21:14:04.0
j0ce1yn changed the coding capacity to yes at 2020-01-18 21:14:04.0
j0ce1yn changed starterator analysis to SS at 2020-01-18 21:14:04.0

Gene Number: 57
dcedwards Added HHPRED Evidence Accession: 6SWS_C Description: Phosphoinositide 3-kinase adapter protein 1; DBB, TIG/IPT, transcription factor, transcription; 3.0A {Homo sapiens} Query Range: (1-14) Target Range: (64-77) at 2020-05-06 17:49:25.0
faith changed the coding capacity to yes at 2020-05-06 17:25:04.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-06 02:38:24.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 18:08:37.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03569 Query Range: (1-55) Target Range: (1-55) at 2020-05-05 18:08:37.0
dcedwards Added HHPRED Evidence Accession: PF01974.17 Description: tRNA_int_endo ; tRNA intron endonuclease, catalytic C-terminal domain Query Range: (33-51) Target Range: (7-28) at 2020-05-05 18:08:37.0
dcedwards Added HHPRED Evidence Accession: 3IEY_A Description: tRNA-splicing endonuclease (E.C.3.1.27.9), NEQ261; protein heterodimer, Endonuclease, Hydrolase, Nuclease; 2.11A {Nanoarchaeum equitans} Query Range: (33-51) Target Range: (62-83) at 2020-05-05 18:08:37.0
dcedwards Added HHPRED Evidence Accession: cd01712 Description: ThiI; ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide. Query Range: (29-55) Target Range: (143-174) at 2020-05-05 18:08:37.0
alonnndramtz changed the gene function to NKF at 2020-01-27 12:25:41.0
alonnndramtz changed starterator analysis to SS at 2020-01-27 12:25:41.0

Gene Number: 58
dcedwards Added CDD Evidence Accession: PRK07772 Query Range: (1-120) Target Range: (1-120) at 2020-05-06 17:50:04.0
dcedwards Added HHPRED Evidence Accession: 1UE1_B Description: Single-strand binding protein; OLIGONUCLEOTIDE BINDING FOLD, DNA-BINDING PROTEIN; 2.5A {Mycobacterium tuberculosis} SCOP: b.40.4.3 Query Range: (1-141) Target Range: (1-141) at 2020-05-06 17:50:04.0
faith changed the coding capacity to yes at 2020-05-06 17:25:49.0
dcedwards Added NCBI BLAST Evidence Accession: WP_071641239 Query Range: (1-145) Target Range: (1-144) at 2020-05-05 18:56:09.0
dcedwards changed the gene function to ssDNA binding protein at 2020-05-05 18:55:44.0
dcedwards changed the gene function to ssDNA binding at 2020-05-05 18:55:35.0
dcedwards changed the gene function to ssDNA binding protein, ERF family at 2020-05-05 18:20:39.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: ssDNA binding protein at 2020-05-05 18:17:10.0
dcedwards Added HHPRED Evidence Accession: 3AFP_A Description: Single-stranded DNA-binding protein; OB-fold, quaternary structure and stability; 2.05A {Mycobacterium leprae} Query Range: (1-129) Target Range: (1-129) at 2020-05-05 18:17:10.0
dcedwards Removed HHPRED Evidence Accession: 3EIV_D Description: Crystal Structure of Single-stranded DNA-binding; Single-stranded DNA-binding protein, Streptomyces Coelicolor; 2.141A {Streptomyces coelicolor} Query Range: (1-130) Target Range: (1-130) at 2020-05-05 18:17:10.0
dcedwards changed the gene function to ssDNA binding protein at 2020-05-05 18:17:10.0
dcedwards changed the gene function to ssDNA binding protein, ERF family at 2020-05-04 20:39:02.0
sam_munoz607 Added Phages DB Evidence Phage Name: Mashley Function: ssDNA binding protein at 2020-01-27 02:27:21.0
sam_munoz607 Added HHPRED Evidence Accession: 3EIV_D Description: Crystal Structure of Single-stranded DNA-binding; Single-stranded DNA-binding protein, Streptomyces Coelicolor; 2.141A {Streptomyces coelicolor} Query Range: (1-130) Target Range: (1-130) at 2020-01-27 02:27:21.0
sam_munoz607 changed starterator analysis to SS at 2020-01-27 02:27:21.0
sam_munoz607 changed the gene function to ssDNA binding protein at 2020-01-18 20:47:13.0
sam_munoz607 changed note to Blastp shows a high percentage of being a ssDNA binding protein. Gene is similar in size and location in comparison to Mashley and Hyperion’s ssDNA binding protein. HHpred showed a near 100% probability of it being a ssDNA at 2020-01-18 20:47:13.0
sam_munoz607 changed the coding capacity to no at 2020-01-18 20:47:13.0
sam_munoz607 changed synteny to All date received for this gene shows that it is a ssDNA binding protein. Blastp showed over an 80% similarities to those of a ssDNA binding protein. HHpred shows a near 100% probability of it being a ssDNA binding protein. at 2020-01-18 20:47:13.0

Gene Number: 59
dcedwards Added HHPRED Evidence Accession: 5NRR_B Description: DNA (cytosine-5)-methyltransferase 3B (E.C.2.1.1.37); DNMT3B PWWP DOMAIN, HISTONE BINDING; HET: SO4, 96E; 1.7A {Homo sapiens} Query Range: (13-50) Target Range: (97-134) at 2020-05-06 17:50:39.0
faith changed the coding capacity to yes at 2020-05-06 17:27:16.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-06 02:38:41.0
faith Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-05 19:12:52.0
faith changed note to HHpred has a 88% probability of it being a cytosine 5-pmethytransferase. NCBI blast shows a 52% probability of it being an unknown function. at 2020-05-05 19:12:52.0
sam_munoz607 changed note to HHpred has a 72% probability of it being a gene with an unknown function. NCBL blast shows a 52% probability of it being an unknown function. at 2020-01-27 00:49:43.0
sam_munoz607 changed the coding capacity to no at 2020-01-27 00:49:43.0
aequirl Removed Phages DB Evidence Phage Name: Smarties Function: function unknown at 2020-01-22 17:34:41.0
sam_munoz607 Added HHPRED Evidence Accession: 5NRR_B Description: DNA (cytosine-5)-methyltransferase 3B (E.C.2.1.1.37); DNMT3B PWWP DOMAIN, HISTONE BINDING; HET: 96E, SO4; 1.7A {Homo sapiens} Query Range: (13-50) Target Range: (97-134) at 2020-01-22 15:44:21.0
sam_munoz607 changed the coding capacity to yes at 2020-01-22 15:44:21.0
sam_munoz607 changed starterator analysis to SS at 2020-01-22 15:44:21.0
chloeogrady changed note to On the NCBI website, the percent identity is 55.2%. On PECAAN, the percent identity is 52.5%. These are similar enough to provide justification. Also, the HHpred website actually worked and matches the HHpred results on PECAAN. at 2020-01-18 21:29:55.0
chloeogrady changed synteny to This gene has an unknown function; therefore, it is classified as NKF. This is supported by similar bacteriophages with similar hypothetical proteins. at 2020-01-18 21:29:55.0
chloeogrady Added Phages DB Evidence Phage Name: Ariadne Function: function unknown at 2020-01-18 21:24:18.0
chloeogrady Added Phages DB Evidence Phage Name: Smarties Function: function unknown at 2020-01-18 21:24:18.0
chloeogrady Added NCBI BLAST Evidence Accession: QGJ89476 Query Range: (1-58) Target Range: (3-60) at 2020-01-18 21:24:18.0
chloeogrady changed the gene function to NKF at 2020-01-18 21:24:18.0

Gene Number: 60
dcedwards Added HHPRED Evidence Accession: 5H2G_A Description: Diaminopimelate epimerase (E.C.5.1.1.7); Isomerase; 2.0A {Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025)} Query Range: (9-56) Target Range: (190-234) at 2020-05-06 17:51:36.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:01:25.0
dcedwards Added HHPRED Evidence Accession: PF01028.20 Description: Topoisom_I ; Eukaryotic DNA topoisomerase I, catalytic core Query Range: (10-54) Target Range: (145-189) at 2020-05-05 19:01:25.0
kristinsefcik Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 15:56:37.0
kristinsefcik Added NCBI BLAST Evidence Accession: AWN03574 Query Range: (1-63) Target Range: (1-63) at 2020-01-22 15:56:37.0
aequirl changed starterator analysis to SS at 2020-01-18 23:41:14.0
aequirl changed the gene function to NKF at 2020-01-18 20:39:08.0
aequirl changed note to No data available. at 2020-01-18 20:39:08.0
aequirl changed the coding capacity to yes at 2020-01-18 20:39:08.0
aequirl changed synteny to NCBI blastp and HHpred both result in hypothetical protein. at 2020-01-18 20:39:08.0

Gene Number: 61
dcedwards Added HHPRED Evidence Accession: 2D1G_A Description: acid phosphatase (E.C.3.1.3.2); Francisella tularensis, Acid Phosphatase, AcpA; HET: DVT, VO4, PGE, ETE; 1.75A {Francisella tularensis subsp. novicida} Query Range: (29-55) Target Range: (380-398) at 2020-05-06 02:39:13.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-06 02:38:58.0
faith Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-05 19:14:54.0
aequirl Removed Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-22 17:47:25.0
aequirl Removed Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 17:47:25.0
aequirl Removed Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-22 17:47:25.0
aequirl Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-22 17:47:25.0
aequirl Removed Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-22 17:47:25.0
aequirl Removed Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-22 17:47:25.0
aequirl Removed Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-01-22 17:47:25.0
aequirl Removed Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-01-22 17:47:25.0
aequirl Added NCBI BLAST Evidence Accession: AWN04682 Query Range: (5-76) Target Range: (4-77) at 2020-01-22 17:47:25.0
aequirl changed the coding capacity to yes at 2020-01-22 17:47:25.0
aequirl changed starterator analysis to SS at 2020-01-22 17:47:25.0
kristinsefcik Added Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-18 20:02:08.0
kristinsefcik Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-18 20:02:08.0
kristinsefcik Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-18 20:02:08.0
kristinsefcik Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-18 20:02:08.0
kristinsefcik Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-18 20:02:08.0
kristinsefcik Added Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-18 20:02:08.0
kristinsefcik Added Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-01-18 20:02:08.0
kristinsefcik Added Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-18 20:02:08.0
kristinsefcik Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-01-18 20:02:08.0
kristinsefcik changed the gene function to NKF at 2020-01-18 20:02:08.0
kristinsefcik changed note to This appears to be an unknown function because the phages most similar to this one all have unknown functions. at 2020-01-18 20:02:08.0

Gene Number: 62
dcedwards Added HHPRED Evidence Accession: cd05992 Description: PB1; The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. Query Range: (3-24) Target Range: (46-67) at 2020-05-06 17:52:02.0
faith changed starterator analysis to SS at 2020-05-05 19:16:27.0
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-05 19:03:00.0
dcedwards Added HHPRED Evidence Accession: cd05992 Description: PB1; The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. Query Range: (3-24) Target Range: (46-67) at 2020-05-05 19:03:00.0
kristinsefcik Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-22 16:19:28.0
kristinsefcik Added NCBI BLAST Evidence Accession: AWN03576 Query Range: (5-37) Target Range: (6-38) at 2020-01-22 16:19:28.0
kristinsefcik changed starterator analysis to NA at 2020-01-22 16:19:28.0
gspotz changed the gene function to NKF at 2020-01-18 21:11:34.0
gspotz changed the coding capacity to yes at 2020-01-18 21:11:34.0
gspotz changed synteny to This gene has an unknown function, because it is does not have a strong probability on HHpred or Blastp indicating it’s similarity to one particular protein. at 2020-01-18 21:11:34.0

Gene Number: 63
dcedwards Added HHPRED Evidence Accession: PF18523.1 Description: Sld3_N ; Sld3 N-terminal domain Query Range: (100-112) Target Range: (57-69) at 2020-05-06 17:52:17.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-06 02:39:30.0
faith Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-05 19:19:15.0
faith Added NCBI BLAST Evidence Accession: WP_138726675 Query Range: (13-96) Target Range: (321-409) at 2020-05-05 19:19:15.0
faith Added HHPRED Evidence Accession: PF18523.1 Description: Sld3_N ; Sld3 N-terminal domain Query Range: (100-112) Target Range: (57-69) at 2020-05-05 19:19:15.0
tannerjtaylor Added HHPRED Evidence Accession: 4II1_D Description: Zinc finger CCCH-type with G; transcription regulation, structural genomics consortium; HET: UNX; 2.65A {Homo sapiens} Query Range: (69-126) Target Range: (94-150) at 2020-01-20 03:41:40.0
tannerjtaylor changed the gene function to NKF at 2020-01-20 03:41:40.0
tannerjtaylor changed note to The highest percentages anywhere were under 60%. at 2020-01-20 03:41:40.0
tannerjtaylor changed synteny to There is no similarity between this gene and others. at 2020-01-20 03:41:40.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-20 03:35:27.0
tannerjtaylor changed the coding capacity to yes at 2020-01-20 03:35:03.0
tannerjtaylor changed starterator analysis to SS at 2020-01-20 03:35:03.0

Gene Number: 64
dcedwards Added NCBI BLAST Evidence Accession: WP_159600273 Query Range: (7-63) Target Range: (4-55) at 2020-05-06 18:40:02.0
dcedwards Added Phages DB Evidence Phage Name: DrGrey Function: chitosanase at 2020-05-06 17:52:36.0
dcedwards Added HHPRED Evidence Accession: 2OY9_A Description: UPF0223 protein BH2638; pfam, UPF0223, 10286b, Structural Genomics; 1.6A {Bacillus halodurans C-125} SCOP: a.276.1.1 Query Range: (5-38) Target Range: (14-47) at 2020-05-06 17:52:36.0
faith changed the start site to 44836 at 2020-05-06 17:33:24.0
faith changed the coding capacity to yes at 2020-05-06 17:32:48.0
faith changed the start site to 44839 at 2020-05-06 17:30:06.0
dcedwards Added Phages DB Evidence Phage Name: DrGrey Function: chitosanase at 2020-05-05 19:03:37.0
dcedwards Added HHPRED Evidence Accession: 2OY9_A Description: UPF0223 protein BH2638; pfam, UPF0223, 10286b, Structural Genomics; 1.6A {Bacillus halodurans C-125} SCOP: a.276.1.1 Query Range: (5-38) Target Range: (14-47) at 2020-05-05 19:03:37.0
tannerjtaylor changed note to Base on the function, it is consider an NKF because NCBI blast states that it is a transporter protein at 51.61% and the HHpred mentions it is not a transporter protein at any percentage. The closest protein will be a Homoprotocatechuate 2,3-dioxygenase at 76.65%. The phages DB does not an Starterator to analyze as well. at 2020-01-29 15:55:03.0
skyler Added NCBI BLAST Evidence Accession: CCX53868 Query Range: (2-32) Target Range: (163-193) at 2020-01-27 05:00:39.0
skyler Added HHPRED Evidence Accession: 2OY9_A Description: UPF0223 protein BH2638; pfam, UPF0223, 10286b, Structural Genomics; 1.6A {Bacillus halodurans C-125} SCOP: a.276.1.1 Query Range: (5-38) Target Range: (14-47) at 2020-01-27 05:00:39.0
gvazquez Added Phages DB Evidence Phage Name: TG1 Function: function unknown at 2020-01-18 21:46:53.0
gvazquez changed the gene function to NKF at 2020-01-18 21:46:53.0
gvazquez changed note to base on the function, it is consider an NKF because NCBI blast states that it is a transporter protein at 51.61% and the HHpred mentions it is not a transporter protein at any percentage. The closest protein will be a Homoprotocatechuate 2,3-dioxygenase at 76.65%. The phages DB does not an Starterator to analyze as well. at 2020-01-18 21:46:53.0
gvazquez changed synteny to I predict that it is closely related to phage TG1 on phages DB. It must be known that a Starterator has not been determine with the archives. at 2020-01-18 21:46:53.0

Gene Number: 65
dcedwards Added HHPRED Evidence Accession: PF17886.1 Description: ArsA_HSP20 ; HSP20-like domain found in ArsA Query Range: (6-25) Target Range: (5-25) at 2020-05-06 17:53:03.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-06 02:39:49.0
faith Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-05 19:20:14.0
faith Added NCBI BLAST Evidence Accession: AWN04687 Query Range: (1-94) Target Range: (1-94) at 2020-05-05 19:20:14.0
faith Removed NCBI BLAST Evidence Accession: AWN03581 Query Range: (1-94) Target Range: (1-94) at 2020-05-05 19:20:14.0
gvazquez Added Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-27 18:20:41.0
gvazquez Removed Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-27 18:20:41.0
gvazquez changed note to Based on HH-pred, there is a 60.37 % probability that gene 64 has an unknown function. NCBI blast estimates a 78.72% hypothetical function (UKF). The gene has an a UNF fucntion. at 2020-01-27 18:20:41.0
gvazquez changed synteny to Phamerator shows a close relationship between Fizzles and NIke. Their relationship is base on on size and they’re both on the backward strand on the strand. at 2020-01-27 18:20:41.0
skyler Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-27 04:43:48.0
skyler Added NCBI BLAST Evidence Accession: AWN03581 Query Range: (1-94) Target Range: (1-94) at 2020-01-27 04:43:48.0
skyler Added HHPRED Evidence Accession: PF17886.1 Description: ArsA_HSP20 ; HSP20-like domain found in ArsA Query Range: (6-25) Target Range: (5-25) at 2020-01-27 04:43:48.0
skyler changed the gene function to NKF at 2020-01-20 07:27:30.0
skyler changed synteny to In NCBI it matches most closely with hypothetical proteins. In HHpred, it has no close matches. In Phamerator, the comparable genes have NKF. at 2020-01-20 07:27:30.0
skyler changed the coding capacity to yes at 2020-01-20 07:20:46.0
skyler changed starterator analysis to SS at 2020-01-20 07:20:46.0

Gene Number: 66
dcedwards Added HHPRED Evidence Accession: 2A8N_B Description: cytidine and deoxycytidylate deaminase; RNA Editing, RNA BINDING PROTEIN; 1.6A {Agrobacterium tumefaciens} SCOP: c.97.1.2 Query Range: (28-117) Target Range: (1-86) at 2020-05-06 17:53:36.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:04:30.0
gvazquez changed note to Could possibly be hnh endonuclease because there is a frequency of 57%. Could possibly be deaminase. There’s a 76.66%. at 2020-01-27 22:29:01.0
skyler Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-27 07:18:51.0
skyler Added NCBI BLAST Evidence Accession: WP_123570403 Query Range: (110-151) Target Range: (13-54) at 2020-01-27 07:18:51.0
skyler Added HHPRED Evidence Accession: 2A8N_B Description: cytidine and deoxycytidylate deaminase; RNA Editing, RNA BINDING PROTEIN; 1.6A {Agrobacterium tumefaciens} SCOP: c.97.1.2 Query Range: (28-117) Target Range: (1-86) at 2020-01-27 07:18:51.0
cebutler changed the coding capacity to yes at 2020-01-22 16:27:48.0
cebutler changed synteny to There is a multitude of reasons for why the function is still unknown. at 2020-01-22 16:27:48.0
cebutler changed starterator analysis to SS at 2020-01-22 16:27:48.0
rebbabcock1 changed the gene function to NKF at 2020-01-18 20:41:22.0
rebbabcock1 changed note to Could possibly be hnh endonuclease because there is a frequency of 57% at 2020-01-18 20:41:22.0

Gene Number: 67
dcedwards Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-06 17:53:55.0
dcedwards Added HHPRED Evidence Accession: PF10518.9 Description: TAT_signal ; TAT (twin-arginine translocation) pathway signal sequence Query Range: (1-23) Target Range: (2-24) at 2020-05-06 17:53:47.0
faith Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-05 19:22:30.0
faith Added HHPRED Evidence Accession: PF10518.9 Description: TAT_signal ; TAT (twin-arginine translocation) pathway signal sequence Query Range: (1-23) Target Range: (2-24) at 2020-05-05 19:22:30.0
faith Removed HHPRED Evidence Accession: cd12821 Description: EcCorA_ZntB-like; Escherichia coli CorA-Salmonella typhimurium ZntB_like family. A family of the MIT superfamily of essential membrane proteins involved in transporting divalent cations (uptake or efflux) across membranes. Query Range: (12-31) Target Range: (228-248) at 2020-05-05 19:22:30.0
skyler Added Phages DB Evidence Phage Name: Nucci Function: membrane protein at 2020-01-27 06:44:32.0
skyler Added NCBI BLAST Evidence Accession: WP_123919251 Query Range: (6-33) Target Range: (300-328) at 2020-01-27 06:44:32.0
skyler Added HHPRED Evidence Accession: cd12821 Description: EcCorA_ZntB-like; Escherichia coli CorA-Salmonella typhimurium ZntB_like family. A family of the MIT superfamily of essential membrane proteins involved in transporting divalent cations (uptake or efflux) across membranes. Query Range: (12-31) Target Range: (228-248) at 2020-01-27 06:44:32.0
skyler changed the coding capacity to yes at 2020-01-27 06:44:32.0
skyler changed starterator analysis to SS at 2020-01-27 06:44:32.0
cebutler changed the gene function to NKF at 2020-01-18 20:56:24.0
cebutler changed note to There is a 100% frequency for membrane protein at 2020-01-18 20:56:24.0
cebutler changed synteny to There is a multitude of reasons for why the function is still unknown. at 2020-01-18 20:56:24.0

Gene Number: 68
dcedwards Added HHPRED Evidence Accession: 5CYB_A Description: Lipoprotein; lipocalin, lipoprotein, PccL, virulence, transport; HET: GOL; 2.1A {Streptococcus pneumoniae} Query Range: (5-29) Target Range: (4-28) at 2020-05-06 17:54:05.0
dcedwards Added Phages DB Evidence Phage Name: Floof Function: function unknown at 2020-05-05 19:05:07.0
dcedwards Added HHPRED Evidence Accession: 5CYB_A Description: Lipoprotein; lipocalin, lipoprotein, PccL, virulence, transport; HET: GOL; 2.1A {Streptococcus pneumoniae} Query Range: (5-29) Target Range: (4-28) at 2020-05-05 19:05:07.0
sgconger Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-27 23:36:52.0
sgconger Removed Phages DB Evidence Phage Name: Mollymur Function: function unknown at 2020-01-27 23:36:52.0
sgconger Removed Phages DB Evidence Phage Name: Nibb Function: function unknown at 2020-01-27 23:36:52.0
sgconger Removed Phages DB Evidence Phage Name: Cracklewink Function: function unknown at 2020-01-27 23:36:52.0
sgconger Removed Phages DB Evidence Phage Name: Bipper Function: function unknown at 2020-01-27 23:36:52.0
sgconger Removed Phages DB Evidence Phage Name: Percival Function: function unknown at 2020-01-27 23:36:52.0
sgconger Removed Phages DB Evidence Phage Name: Juliette_Draft Function: function unknown at 2020-01-27 23:36:52.0
sgconger Removed Phages DB Evidence Phage Name: Mitti Function: function unknown at 2020-01-27 23:36:52.0
sgconger Removed Phages DB Evidence Phage Name: Fionnbharth Function: function unknown at 2020-01-27 23:36:52.0
sgconger Removed NCBI BLAST Evidence Accession: CEN33171 Query Range: (30-69) Target Range: (145-184) at 2020-01-27 23:36:52.0
sgconger Removed NCBI BLAST Evidence Accession: WP_056554124 Query Range: (9-57) Target Range: (4-64) at 2020-01-27 23:36:52.0
sgconger Removed NCBI BLAST Evidence Accession: WP_055967294 Query Range: (9-57) Target Range: (4-64) at 2020-01-27 23:36:52.0
sgconger Removed NCBI BLAST Evidence Accession: WP_056578961 Query Range: (9-57) Target Range: (4-64) at 2020-01-27 23:36:52.0
sgconger Added HHPRED Evidence Accession: PF16339.5 Description: DUF4969 ; Domain of unknown function (DUF4969) Query Range: (5-29) Target Range: (3-28) at 2020-01-27 23:36:52.0
cebutler changed note to No data available at 2020-01-22 16:28:34.0
cebutler changed the coding capacity to yes at 2020-01-22 16:28:34.0
sgconger changed starterator analysis to SS at 2020-01-18 21:24:35.0
sgconger Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-18 21:19:59.0
sgconger Added Phages DB Evidence Phage Name: Floof Function: function unknown at 2020-01-18 21:19:59.0
sgconger Added Phages DB Evidence Phage Name: Mollymur Function: function unknown at 2020-01-18 21:19:59.0
sgconger Added Phages DB Evidence Phage Name: Bipper Function: function unknown at 2020-01-18 21:19:59.0
sgconger Added Phages DB Evidence Phage Name: Cracklewink Function: function unknown at 2020-01-18 21:19:59.0
sgconger Added Phages DB Evidence Phage Name: Nibb Function: function unknown at 2020-01-18 21:19:59.0
sgconger Added Phages DB Evidence Phage Name: Juliette_Draft Function: function unknown at 2020-01-18 21:19:59.0
sgconger Added Phages DB Evidence Phage Name: Percival Function: function unknown at 2020-01-18 21:19:59.0
sgconger Added Phages DB Evidence Phage Name: Fionnbharth Function: function unknown at 2020-01-18 21:19:59.0
sgconger Added Phages DB Evidence Phage Name: Mitti Function: function unknown at 2020-01-18 21:19:59.0
sgconger Added NCBI BLAST Evidence Accession: RYY45858 Query Range: (9-79) Target Range: (4-102) at 2020-01-18 21:19:59.0
sgconger Added NCBI BLAST Evidence Accession: CEN33171 Query Range: (30-69) Target Range: (145-184) at 2020-01-18 21:19:59.0
sgconger Added NCBI BLAST Evidence Accession: WP_056554124 Query Range: (9-57) Target Range: (4-64) at 2020-01-18 21:19:59.0
sgconger Added NCBI BLAST Evidence Accession: WP_055967294 Query Range: (9-57) Target Range: (4-64) at 2020-01-18 21:19:59.0
sgconger Added NCBI BLAST Evidence Accession: WP_056578961 Query Range: (9-57) Target Range: (4-64) at 2020-01-18 21:19:59.0
sgconger changed the gene function to NKF at 2020-01-18 21:19:59.0
sgconger changed synteny to NKF at 2020-01-18 21:19:59.0

Gene Number: 69
dcedwards changed synteny to Due to the placement of the gene, a DNA primase/helicase would make sense as compared to Squash. Has both primase and helicase domains on HHpred. at 2020-05-06 18:25:03.0
dcedwards Added HHPRED Evidence Accession: 6N9X_B Description: DNA-directed DNA polymerase, TrxA/DNA Complex; DNA polymerase, primase, helicase, DNA; HET: DOC, TTP;{Enterobacteria phage T7} Query Range: (20-483) Target Range: (7-544) at 2020-05-06 17:54:27.0
dcedwards Added CDD Evidence Accession: cd01125 Query Range: (272-460) Target Range: (3-203) at 2020-05-06 02:41:50.0
dcedwards Added CDD Evidence Accession: cd01029 Query Range: (126-195) Target Range: (1-70) at 2020-05-06 02:41:50.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: DNA primase at 2020-05-06 02:40:24.0
faith Added Phages DB Evidence Phage Name: Squash Function: DNA primase at 2020-05-05 19:24:09.0
faith Added HHPRED Evidence Accession: 6N9X_B Description: DNA-directed DNA polymerase, TrxA/DNA Complex; DNA polymerase, primase, helicase, DNA; HET: DOC, TTP;{Enterobacteria phage T7} Query Range: (20-483) Target Range: (7-544) at 2020-05-05 19:24:09.0
mcrew99 changed note to DNA recombinase was 27% on the function frequency. In squash it was DNA primase, with only 44% query cover. DNA Primase/helicase was 100% probability on HHPred. at 2020-01-26 23:38:49.0
sgconger Added Phages DB Evidence Phage Name: Squash Function: DNA primase at 2020-01-22 15:58:11.0
sgconger Added NCBI BLAST Evidence Accession: AWN04690 Query Range: (1-657) Target Range: (1-660) at 2020-01-22 15:58:11.0
sgconger Added HHPRED Evidence Accession: 2AU3_A Description: DNA primase (E.C.2.7.7.-); Zinc Ribbon, TOPRIM, RNA POLYMERASE; 2.0A {Aquifex aeolicus} Query Range: (7-235) Target Range: (15-355) at 2020-01-22 15:58:11.0
mcrew99 changed the gene function to DNA primase/helicase at 2020-01-18 21:54:12.0
mcrew99 changed note to DNA recombinase was 27% on the function frequency. In squash it was DNA primase, with only 44% query cover. DNA Primase/helicase was 100 probability on HHPred. at 2020-01-18 21:54:12.0
mcrew99 changed the coding capacity to yes at 2020-01-18 21:54:12.0
mcrew99 changed synteny to Due to the placement of the gene, a DNA primase/helicase would make sense as compared to Squash. at 2020-01-18 21:54:12.0
mcrew99 changed starterator analysis to SS at 2020-01-18 21:54:12.0

Gene Number: 70
dcedwards Added HHPRED Evidence Accession: PF00746.21 Description: Gram_pos_anchor ; LPXTG cell wall anchor motif Query Range: (416-451) Target Range: (8-43) at 2020-05-06 18:04:49.0
dcedwards Added Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-05-05 19:08:49.0
dcedwards Added NCBI BLAST Evidence Accession: AYD87324 Query Range: (2-440) Target Range: (3-389) at 2020-05-05 19:08:49.0
dcedwards Added HHPRED Evidence Accession: PF00746.21 Description: Gram_pos_anchor ; LPXTG cell wall anchor motif Query Range: (416-451) Target Range: (8-43) at 2020-05-05 19:08:49.0
dcedwards changed the gene function to NKF at 2020-05-05 19:08:49.0
stephaniegarcia changed the gene function to major tail protein at 2020-01-18 21:45:19.0
stephaniegarcia changed note to NCBI is 49% major tail protein. HHpred is 71.28% gram pos anchor. at 2020-01-18 21:45:19.0
stephaniegarcia changed the coding capacity to yes at 2020-01-18 21:45:19.0
stephaniegarcia changed synteny to The protein shows characteristics of being major tail protein based of its placement on phamerator. at 2020-01-18 21:45:19.0

Gene Number: 71
dcedwards Added HHPRED Evidence Accession: 4Q2U_C Description: Antitoxin DinJ, mRNA interferase YafQ; Bacterial Toxin-Antitoxin complex, Translation control; HET: MSE, SO4; 1.8A {Escherichia coli} Query Range: (51-84) Target Range: (3-35) at 2020-05-06 18:05:11.0
dcedwards Added Phages DB Evidence Phage Name: Tempo Function: function unknown at 2020-05-06 02:42:12.0
dcedwards changed the coding capacity to yes at 2020-05-05 23:36:52.0
dcedwards changed the start site to 49901 at 2020-05-05 23:36:47.0
stephaniegarcia changed note to The genome position does have a variation of 49901 to 49590 (Reverse) within Phagedb (070) and within PECAAN (070) 49901 to 49901. NCBI shows a large support for minor tail protein. HHpred 95.27% on transcriptional repressor COG. at 2020-01-24 05:03:38.0
joannag Added HHPRED Evidence Accession: 2F3J_A Description: ARIA_NM_RDCfit_1; RRM domain RBD domain.; NMR {Mus musculus} Query Range: (1-26) Target Range: (21-46) at 2020-01-23 15:45:14.0
j0ce1yn Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 16:43:04.0
j0ce1yn changed the coding capacity to yes at 2020-01-22 16:43:04.0
j0ce1yn changed synteny to It does not have a known function and the subcluster is not similar to the cluster at 2020-01-22 16:43:04.0
j0ce1yn changed the start site to 49673 at 2020-01-22 16:41:54.0
joannag Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-01-21 19:16:29.0
joannag Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-21 19:16:29.0
joannag Added Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-21 19:16:29.0
joannag Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-21 19:16:29.0
joannag Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-21 19:16:29.0
joannag Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-21 19:16:29.0
joannag Added Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-01-21 19:16:29.0
joannag Added Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-21 19:16:29.0
joannag Added Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-21 19:16:29.0
joannag Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-21 19:16:29.0
joannag changed the gene function to NKF at 2020-01-21 19:16:29.0
joannag changed synteny to It does not have an unknown function and the subcluster is not similar to the cluster at 2020-01-21 19:16:29.0
joannag changed starterator analysis to SS at 2020-01-21 19:16:29.0

Gene Number: 72
dcedwards Added HHPRED Evidence Accession: PF14628.6 Description: Afp1, Afp2, Afp3, Afp16; Anti-feeding prophage, secretion system, AFP; 2.8A {Serratia entomophila} Query Range: (40-53) Target Range: (131-144) at 2020-05-06 18:05:39.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-05-05 19:09:12.0
dcedwards Added HHPRED Evidence Accession: PF14628.6 Description: ?; Ribosome biogenesis, RIBOSOME;{Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719)} Query Range: (40-53) Target Range: (131-144) at 2020-05-05 19:09:12.0
joannag Added NCBI BLAST Evidence Accession: AWN03587 Query Range: (1-59) Target Range: (29-86) at 2020-01-23 15:45:31.0
j0ce1yn changed synteny to NCBI found only three matches for hypothetical proteins in Hyperion, Squash, and OneinaGillian. Pharmerator showed gene in a similar location as other phages from the same class; Squash: gene 75, OneinaGillian: gene 76, Mashley: gene 74, and Hyperion: gene 72, RubyRalph: gene 72. HHPred visualization was not very conclusive and was considered not applicable. at 2020-01-20 05:46:11.0
j0ce1yn changed the gene function to NKF at 2020-01-18 22:04:33.0
j0ce1yn changed the coding capacity to yes at 2020-01-18 21:20:55.0
j0ce1yn changed starterator analysis to SS at 2020-01-18 21:20:55.0

Gene Number: 73
dcedwards Added HHPRED Evidence Accession: PF16484.5 Description: CPT_N ; Carnitine O-palmitoyltransferase N-terminus Query Range: (1-13) Target Range: (1-13) at 2020-05-06 18:05:49.0
faith changed the coding capacity to yes at 2020-05-06 17:34:53.0
faith Added Phages DB Evidence Phage Name: Nike Function: function unknown at 2020-05-05 19:32:19.0
faith Added NCBI BLAST Evidence Accession: QIG59083 Query Range: (1-108) Target Range: (1-108) at 2020-05-05 19:32:19.0
faith Added HHPRED Evidence Accession: PF16484.5 Description: CPT_N ; Carnitine O-palmitoyltransferase N-terminus Query Range: (1-13) Target Range: (1-13) at 2020-05-05 19:32:19.0
alonnndramtz changed the gene function to NKF at 2020-01-27 12:26:26.0
alonnndramtz changed starterator analysis to SS at 2020-01-27 12:26:26.0

Gene Number: 74
dcedwards Added HHPRED Evidence Accession: PF07629.11 Description: DUF1590 ; Protein of unknown function (DUF1590) Query Range: (19-32) Target Range: (3-16) at 2020-05-06 18:05:58.0
faith changed the coding capacity to yes at 2020-05-06 17:35:27.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:09:36.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03589 Query Range: (1-104) Target Range: (1-103) at 2020-05-05 19:09:36.0
dcedwards Added HHPRED Evidence Accession: PF07629.11 Description: DUF1590 ; Protein of unknown function (DUF1590) Query Range: (19-32) Target Range: (3-16) at 2020-05-05 19:09:36.0
sam_munoz607 Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-27 02:29:32.0
sam_munoz607 Added HHPRED Evidence Accession: PF07629.11 Description: DUF1590 ; Protein of unknown function (DUF1590) Query Range: (19-32) Target Range: (3-16) at 2020-01-27 02:29:32.0
sam_munoz607 changed the coding capacity to no at 2020-01-27 02:29:32.0
sam_munoz607 changed starterator analysis to SS at 2020-01-27 02:29:32.0
sam_munoz607 changed the gene function to NKF at 2020-01-18 21:00:57.0
sam_munoz607 changed note to PhagesDB shows gene as an orpham; does not provide starterator data. HHpred shows 96% probability of being a protein of unknown function. Shows a frequency of 67% at 2020-01-18 21:00:57.0
sam_munoz607 changed synteny to The blastp, HHpred show data that gives this gene a high probability of being a protein of unknown function. Shares similar size and gene location with that of Hyperion and Mashley, though the gene function is unknown. at 2020-01-18 21:00:57.0

Gene Number: 75
dcedwards Added Phages DB Evidence Phage Name: Agatha Function: minor tail protein at 2020-05-05 19:45:06.0
faith Added HHPRED Evidence Accession: PF04448.12 Description: DUF551 ; Protein of unknown function (DUF551) Query Range: (4-59) Target Range: (1-62) at 2020-05-05 19:33:08.0
chloeogrady Removed Phages DB Evidence Phage Name: Agatha Function: minor tail protein at 2020-01-30 04:04:24.0
chloeogrady Added NCBI BLAST Evidence Accession: WP_018186119 Query Range: (4-55) Target Range: (60-111) at 2020-01-30 04:04:24.0
sam_munoz607 Added Phages DB Evidence Phage Name: Agatha Function: minor tail protein at 2020-01-27 00:55:42.0
sam_munoz607 changed note to This was difficult because Phagesdb was relating this gene to a minor tail protein; however, HHpred and NCBI have only bacteriophages with proteins of unknown function to compare it to; HHpred showed a 96% probability of it being an unknown function. However, the relation on NCBI has a percent identity of only 36.6%. at 2020-01-27 00:55:42.0
aequirl changed the coding capacity to yes at 2020-01-22 17:36:28.0
sam_munoz607 Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 15:48:46.0
sam_munoz607 Added HHPRED Evidence Accession: PF04448.12 Description: DUF551 ; Protein of unknown function (DUF551) Query Range: (4-59) Target Range: (1-62) at 2020-01-22 15:48:46.0
sam_munoz607 Added HHPRED Evidence Accession: PF11932.8 Description: DUF3450 ; Protein of unknown function (DUF3450) Query Range: (17-63) Target Range: (171-221) at 2020-01-22 15:48:46.0
sam_munoz607 changed the coding capacity to no at 2020-01-22 15:48:46.0
sam_munoz607 changed starterator analysis to SS at 2020-01-22 15:48:46.0
chloeogrady changed note to This was difficult because Phagesdb was relating this gene to a minor tail protein; however, HHpred and NCBI have only bacteriophages with proteins of unknown function to compare it to. However, the relation on NCBI has a percent identity of only 36.6%. at 2020-01-18 21:44:59.0
chloeogrady Added NCBI BLAST Evidence Accession: WP_039266277 Query Range: (4-57) Target Range: (3-56) at 2020-01-18 21:42:36.0
chloeogrady changed the gene function to NKF at 2020-01-18 21:42:36.0
chloeogrady changed note to This was difficult because Phagesdb was relating this gene to a minor tail protein; however, HHpred and NCBI have only bacteriophages with proteins of unknown function to compare it to. at 2020-01-18 21:42:36.0
chloeogrady changed synteny to This is a common protein with no known function. It will be classified as NKF because it’s function is unknown. at 2020-01-18 21:42:36.0

Gene Number: 76
dcedwards Added HHPRED Evidence Accession: 3F7L_A Description: Copper,Zinc Superoxide Dismutase (E.C.1.15.1.1); OXIDOREDUCTASE (SUPEROXIDE ACCEPTOR), superoxide dismutase; HET: ACY, SO4; 0.99A {Alvinella pompejana} Query Range: (43-72) Target Range: (16-45) at 2020-05-06 18:06:19.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:10:01.0
dcedwards Added HHPRED Evidence Accession: 3F7L_A Description: Copper,Zinc Superoxide Dismutase (E.C.1.15.1.1); OXIDOREDUCTASE (SUPEROXIDE ACCEPTOR), superoxide dismutase; HET: ACY, SO4; 0.99A {Alvinella pompejana} Query Range: (43-72) Target Range: (16-45) at 2020-05-05 19:10:01.0
aequirl Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 17:56:13.0
aequirl Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-22 17:56:13.0
kristinsefcik Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-22 16:08:50.0
kristinsefcik Added NCBI BLAST Evidence Accession: AWN03590 Query Range: (1-86) Target Range: (1-86) at 2020-01-22 16:08:50.0
aequirl changed the gene function to NKF at 2020-01-18 23:20:46.0
aequirl changed note to No data available when refreshed. at 2020-01-18 23:20:46.0
aequirl changed the coding capacity to yes at 2020-01-18 23:20:46.0
aequirl changed synteny to NCBI Blastp revealed “hypothetical protein.” HHpred showed no other information. at 2020-01-18 23:20:46.0
aequirl changed starterator analysis to SS at 2020-01-18 23:20:46.0

Gene Number: 77
dcedwards Added HHPRED Evidence Accession: PF01011.21 Description: PQQ ; PQQ enzyme repeat Query Range: (10-33) Target Range: (1-24) at 2020-05-06 18:06:29.0
faith changed the coding capacity to yes at 2020-05-06 17:37:21.0
dcedwards Added Phages DB Evidence Phage Name: Lupine Function: function unknown at 2020-05-05 19:47:05.0
dcedwards Removed Phages DB Evidence Phage Name: Hamlet Function: DNA recombinase at 2020-05-05 19:47:05.0
dcedwards changed the gene function to NKF at 2020-05-05 19:46:32.0
dcedwards Added Phages DB Evidence Phage Name: Hamlet Function: DNA recombinase at 2020-05-05 19:46:03.0
dcedwards Added HHPRED Evidence Accession: PF11094.8 Description: UL11 ; Membrane-associated tegument protein Query Range: (6-25) Target Range: (23-43) at 2020-05-05 19:46:03.0
aequirl Removed Phages DB Evidence Phage Name: Raccoon Function: DNA recombinase at 2020-01-22 17:49:14.0
aequirl Added NCBI BLAST Evidence Accession: WP_054898003 Query Range: (20-66) Target Range: (45-92) at 2020-01-22 17:49:14.0
aequirl changed the coding capacity to no at 2020-01-22 17:49:14.0
aequirl changed starterator analysis to SS at 2020-01-22 17:49:14.0
kristinsefcik Added Phages DB Evidence Phage Name: Hamlet Function: DNA recombinase at 2020-01-18 20:21:38.0
kristinsefcik Added Phages DB Evidence Phage Name: Raccoon Function: DNA recombinase at 2020-01-18 20:21:38.0
kristinsefcik changed the gene function to RecA-like DNA Recombinase at 2020-01-18 20:21:38.0
kristinsefcik changed note to The most similar phage has a DNA recombinase function. at 2020-01-18 20:21:38.0
kristinsefcik changed synteny to The phagesdb function frequency % for DNA recombinase is 67%. at 2020-01-18 20:21:38.0

Gene Number: 78
dcedwards Added HHPRED Evidence Accession: 3VYR_A Description: Hydrogenase expression/formation protein HypC, Hydrogenase; [NiFe] hydrogenase maturation, METAL BINDING; HET: CIT; 2.55A {Thermococcus kodakarensis} Query Range: (4-34) Target Range: (21-44) at 2020-05-06 18:06:42.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:10:30.0
dcedwards Added HHPRED Evidence Accession: PF08496.10 Description: Peptidase_S49_N ; Peptidase family S49 N-terminal Query Range: (21-43) Target Range: (115-137) at 2020-05-05 19:10:30.0
kristinsefcik Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 16:20:32.0
kristinsefcik Added NCBI BLAST Evidence Accession: AWN03593 Query Range: (1-109) Target Range: (1-109) at 2020-01-22 16:20:32.0
kristinsefcik changed starterator analysis to SS at 2020-01-22 16:20:32.0
gspotz changed the gene function to NKF at 2020-01-18 21:21:25.0
gspotz changed the coding capacity to yes at 2020-01-18 21:21:25.0
gspotz changed synteny to This gene has an unknown function, because it is does not have a strong probability on HHpred or Blastp indicating it’s similarity to one particular protein. at 2020-01-18 21:21:25.0

Gene Number: 79
dcedwards Added HHPRED Evidence Accession: cd11535 Description: NTP-PPase_SsMazG; Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Sulfolobus solfataricus (Ss) and its homologs from archaea and bacteria. Query Range: (33-73) Target Range: (33-73) at 2020-05-06 18:06:52.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03591 Query Range: (4-88) Target Range: (7-91) at 2020-05-05 19:48:54.0
dcedwards Removed HHPRED Evidence Accession: cd11535 Description: NTP-PPase_SsMazG; Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Sulfolobus solfataricus (Ss) and its homologs from archaea and bacteria. Query Range: (33-73) Target Range: (33-73) at 2020-05-05 19:48:54.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: MazG-like nucleotide pyrophosphohydrolase at 2020-05-05 19:48:23.0
dcedwards Removed Phages DB Evidence Phage Name: Hyperion Function: nucleotide pyrophosphohydrolase at 2020-05-05 19:48:23.0
dcedwards changed the gene function to MazG-like nucleotide pyrophosphohydrolase at 2020-05-05 19:48:14.0
faith Added Phages DB Evidence Phage Name: Hyperion Function: nucleotide pyrophosphohydrolase at 2020-05-05 19:43:15.0
faith Removed NCBI BLAST Evidence Accession: AWN03591 Query Range: (4-88) Target Range: (7-91) at 2020-05-05 19:43:15.0
faith Added HHPRED Evidence Accession: cd11535 Description: NTP-PPase_SsMazG; Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Sulfolobus solfataricus (Ss) and its homologs from archaea and bacteria. Query Range: (33-73) Target Range: (33-73) at 2020-05-05 19:43:15.0
tannerjtaylor Added NCBI BLAST Evidence Accession: AWN03591 Query Range: (4-88) Target Range: (7-91) at 2020-01-20 03:57:57.0
tannerjtaylor Added HHPRED Evidence Accession: 2YXH_B Description: MazG-related protein; TM0360, Left-handed superhelix fold, Structural; 2.0A {Thermotoga maritima} Query Range: (30-80) Target Range: (35-89) at 2020-01-20 03:57:57.0
tannerjtaylor changed note to All reports match well, as well as the synteny with hyperion. at 2020-01-20 03:57:57.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-20 03:54:18.0
tannerjtaylor changed the gene function to nucleotide pyrophosphohydrolase at 2020-01-20 03:54:18.0
tannerjtaylor changed note to HHpred and NCBI Blast show no matches. at 2020-01-20 03:54:18.0
tannerjtaylor changed synteny to There is great similarity with hyperion gene 76 and mashley gene 78 at 2020-01-20 03:54:18.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-20 03:46:28.0
tannerjtaylor changed the coding capacity to yes at 2020-01-20 03:46:28.0
tannerjtaylor changed starterator analysis to SS at 2020-01-20 03:46:28.0

Gene Number: 80
dcedwards Added HHPRED Evidence Accession: PF06169.12 Description: DUF982 ; Protein of unknown function (DUF982) Query Range: (14-53) Target Range: (1-37) at 2020-05-06 18:07:07.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:10:46.0
dcedwards Added HHPRED Evidence Accession: PF06169.12 Description: DUF982 ; Protein of unknown function (DUF982) Query Range: (14-53) Target Range: (1-37) at 2020-05-05 19:10:46.0
skyler Added NCBI BLAST Evidence Accession: AWN03595 Query Range: (1-108) Target Range: (1-108) at 2020-01-27 05:58:27.0
gvazquez changed the gene function to NKF at 2020-01-18 22:14:27.0
gvazquez Added HHPRED Evidence Accession: PF06169.12 Description: DUF982 ; Protein of unknown function (DUF982) Query Range: (14-53) Target Range: (1-37) at 2020-01-18 22:13:01.0
gvazquez Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-18 22:12:05.0
gvazquez changed the gene function to UNF at 2020-01-18 22:12:05.0
gvazquez changed note to Based on the NCBI data, there is hypothetical function which means that there is no function. All of the given options are hypothetical at a range of 75% to 57%. The software HHpred shows hypothetical at a 43.88 %. On the Nr 5. Phages db blast showed phages that were all hypothetical. at 2020-01-18 22:12:05.0
gvazquez changed synteny to Based on the phamerator, the phage squash has a similar gene size and number on the sequence. They also share the hypothetical as known as no function compare to the other phages on the phages DB blast at 2020-01-18 22:12:05.0
gvazquez changed the coding capacity to yes at 2020-01-18 21:54:12.0
gvazquez changed starterator analysis to SS at 2020-01-18 21:54:12.0

Gene Number: 81
dcedwards Added HHPRED Evidence Accession: PF01698.16 Description: SAM_LFY ; Floricaula / Leafy protein SAM domain Query Range: (31-81) Target Range: (35-73) at 2020-05-06 18:07:17.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-05-05 19:41:53.0
dcedwards Added HHPRED Evidence Accession: PF01698.16 Description: SAM_LFY ; Floricaula / Leafy protein SAM domain Query Range: (31-81) Target Range: (35-73) at 2020-05-05 19:41:53.0
gvazquez changed the gene function to NKF at 2020-01-27 18:39:27.0
gvazquez changed note to NCBI blast indicated a hypothetical function (NKF) at 73.33% identity. HH pred did not show any hypothetical function. at 2020-01-27 18:39:27.0
gvazquez changed the gene function to UKF at 2020-01-27 18:36:16.0
skyler Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-01-27 07:21:13.0
skyler Added NCBI BLAST Evidence Accession: AYB70195 Query Range: (67-96) Target Range: (31-60) at 2020-01-27 07:21:13.0
skyler Added HHPRED Evidence Accession: 4UDE_B Description: GINLFY PROTEIN; SAM, TRANSCRIPTION, OLIGOMERISATION; HET: GOL, PG4; 2.25A {GINKGO BILOBA} Query Range: (31-81) Target Range: (40-78) at 2020-01-27 07:21:13.0
skyler changed the gene function to NKF at 2020-01-21 02:25:56.0
skyler changed synteny to Phamerator has no matches with proteins of known function. NCBI has only one hit which is a hypothetical protein. HHpred did not have a very definitive answer for what the function is either. at 2020-01-21 02:25:56.0
skyler changed the coding capacity to yes at 2020-01-21 00:58:33.0
skyler changed starterator analysis to NA at 2020-01-21 00:58:33.0

Gene Number: 82
dcedwards Added HHPRED Evidence Accession: PF00561.20 Description: Abhydrolase_1 ; alpha/beta hydrolase fold Query Range: (102-146) Target Range: (32-78) at 2020-05-06 18:07:26.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-05 19:11:02.0
skyler changed starterator analysis to SS at 2020-01-27 07:20:32.0
skyler Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-27 07:19:33.0
skyler Added NCBI BLAST Evidence Accession: QED11899 Query Range: (1-168) Target Range: (1-168) at 2020-01-27 07:19:33.0
skyler Added HHPRED Evidence Accession: PF00561.20 Description: Abhydrolase_1 ; alpha/beta hydrolase fold Query Range: (102-146) Target Range: (32-78) at 2020-01-27 07:19:33.0
cebutler changed the coding capacity to yes at 2020-01-22 16:31:12.0
cebutler changed synteny to There are several reasons for why the function is still unknown. at 2020-01-22 16:31:12.0
rebbabcock1 changed the gene function to NKF at 2020-01-18 20:58:46.0
rebbabcock1 changed note to Could be minor tail protein with a frequency of 57% or DNA polymerase I with a frequency of 24% at 2020-01-18 20:58:46.0

Gene Number: 83
dcedwards Added HHPRED Evidence Accession: 3VIQ_A Description: Swi5-dependent recombination DNA repair protein; recombination activator; HET: GOL; 2.2A {Schizosaccharomyces pombe} Query Range: (85-136) Target Range: (42-119) at 2020-05-06 18:25:53.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-05 19:42:16.0
skyler Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-27 06:56:54.0
skyler Added NCBI BLAST Evidence Accession: AWN04705 Query Range: (1-150) Target Range: (1-149) at 2020-01-27 06:56:54.0
skyler Added HHPRED Evidence Accession: 3VIQ_A Description: Swi5-dependent recombination DNA repair protein; recombination activator; HET: GOL; 2.2A {Schizosaccharomyces pombe} Query Range: (85-136) Target Range: (42-119) at 2020-01-27 06:56:54.0
skyler changed the coding capacity to yes at 2020-01-27 06:54:01.0
skyler changed starterator analysis to SS at 2020-01-27 06:54:01.0
cebutler changed the gene function to NKF at 2020-01-18 21:01:53.0
cebutler changed note to No data is available for function frequency. at 2020-01-18 21:01:53.0
cebutler changed synteny to There are several reasons for why the function is still unknown. at 2020-01-18 21:01:53.0

Gene Number: 84
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:11:24.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03600 Query Range: (1-106) Target Range: (1-106) at 2020-05-05 19:11:24.0
sgconger Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-27 23:39:15.0
sgconger Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-27 23:39:15.0
sgconger Removed Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-27 23:39:15.0
sgconger Removed Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-27 23:39:15.0
cebutler changed note to There is a 50% chance that this is a minor tail protein and a 50% chance that this dna polymerase i at 2020-01-22 16:34:27.0
cebutler changed the coding capacity to yes at 2020-01-22 16:34:27.0
sgconger Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-18 21:39:57.0
sgconger Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-18 21:39:57.0
sgconger Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-18 21:39:57.0
sgconger Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-18 21:39:57.0
sgconger Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-18 21:39:57.0
sgconger Added HHPRED Evidence Accession: 2HBP_A Description: Cytoskeleton assembly control protein SLA1; Sla1, SHD1, NPFx(1,2)D, endocytosis, PROTEIN; NMR {Saccharomyces cerevisiae} Query Range: (61-96) Target Range: (7-41) at 2020-01-18 21:39:57.0
sgconger changed the gene function to NKF at 2020-01-18 21:39:57.0
sgconger changed synteny to NKF at 2020-01-18 21:39:57.0
sgconger changed starterator analysis to SS at 2020-01-18 21:39:57.0

Gene Number: 85
dcedwards Added HHPRED Evidence Accession: 2OP8_B Description: Probable tautomerase ywhB (E.C.5.3.2.-); 4-OT, tautomerase, ISOMERASE; 2.5A {Bacillus subtilis} Query Range: (55-90) Target Range: (3-34) at 2020-05-06 18:26:13.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:42:46.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03601 Query Range: (5-116) Target Range: (3-114) at 2020-05-05 19:42:46.0
dcedwards Added HHPRED Evidence Accession: 2OPA_B Description: Probable tautomerase ywhB (E.C.5.3.2.-); homohexamer, 4-Oxalocrotonate Tautomerase, inhibitor, 2-Fluoro-p-Hydroxycinnamate; HET: FHC; 2.4A {Bacillus subtilis} Query Range: (55-90) Target Range: (3-34) at 2020-05-05 19:42:46.0
mcrew99 changed the gene function to NKF at 2020-01-18 22:05:20.0
mcrew99 changed note to Capsid maturation protease came up with 59% frequency. Coronavirus nucleocapsid protein came up on HHPred as the top hit with 87 probability. at 2020-01-18 22:05:20.0
mcrew99 changed the coding capacity to yes at 2020-01-18 22:05:20.0
mcrew99 changed synteny to NKF at 2020-01-18 22:05:20.0
mcrew99 changed starterator analysis to SS at 2020-01-18 22:05:20.0

Gene Number: 86
dcedwards Added HHPRED Evidence Accession: 4F8J_A Description: Putative branched-chain amino acid transport; lignin degratation, Structural Genomics, PSI-Biology; HET: GOL, EPE, SO4, HC4; 1.6A {Rhodopseudomonas palustris} Query Range: (13-48) Target Range: (315-350) at 2020-05-06 18:26:23.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:11:42.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03602 Query Range: (1-195) Target Range: (14-208) at 2020-05-05 19:11:42.0
dcedwards Added HHPRED Evidence Accession: 4EYQ_A Description: Extracellular ligand-binding receptor; PSI-BIOLOGY, MCSG, MIDWEST CENTER FOR; HET: DHC, ENO; 1.96A {Rhodopseudomonas palustris} Query Range: (13-57) Target Range: (315-359) at 2020-05-05 19:11:42.0
stephaniegarcia changed the gene function to NKF at 2020-01-18 22:00:25.0
stephaniegarcia changed note to NCBI is 100% on the protein being hypothetical.
HHpred has similarities to fungal proteins, (IVB, IVD, IVE) and polo like kinase. at 2020-01-18 22:00:25.0
stephaniegarcia changed the coding capacity to yes at 2020-01-18 22:00:25.0
stephaniegarcia changed synteny to The importation does not provide a definite function of the protein. at 2020-01-18 22:00:25.0
stephaniegarcia changed starterator analysis to NA at 2020-01-18 22:00:25.0

Gene Number: 87
dcedwards Added HHPRED Evidence Accession: 2FK9_A Description: protein kinase C, eta type; ATP-binding, Kinase, Metal-binding, Nucleotide-binding, Diacylglycerol; 1.75A {Homo sapiens} Query Range: (18-40) Target Range: (135-157) at 2020-05-06 18:26:31.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:43:12.0
dcedwards Added HHPRED Evidence Accession: 2FK9_A Description: protein kinase C, eta type; ATP-binding, Kinase, Metal-binding, Nucleotide-binding, Diacylglycerol; 1.75A {Homo sapiens} Query Range: (18-40) Target Range: (135-157) at 2020-05-05 19:43:12.0
stephaniegarcia changed note to NCBI shows indications that 56% major tail protein. Phamerator map shows variation however strong evidence for the tail protein. at 2020-01-24 05:03:07.0
stephaniegarcia changed synteny to This gene shows two different function such as protein kinase and hypothetical protein according to HHpred therefore the full function is unknown. at 2020-01-24 05:03:07.0
j0ce1yn Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 16:48:48.0
j0ce1yn Removed Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-22 16:48:48.0
j0ce1yn Removed Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-22 16:48:48.0
j0ce1yn Removed Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-22 16:48:48.0
j0ce1yn Removed Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-22 16:48:48.0
j0ce1yn Removed Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-22 16:48:48.0
j0ce1yn Removed Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-01-22 16:48:48.0
j0ce1yn Removed Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-22 16:48:48.0
j0ce1yn Removed Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-01-22 16:48:48.0
j0ce1yn Added NCBI BLAST Evidence Accession: AWN03603 Query Range: (1-78) Target Range: (1-78) at 2020-01-22 16:48:48.0
j0ce1yn Added HHPRED Evidence Accession: 1YRK_A Description: Protein kinase C, delta type; C2 domain, PROTEIN BINDING; 1.7A {Homo sapiens} Query Range: (16-40) Target Range: (101-125) at 2020-01-22 16:48:48.0
j0ce1yn changed the coding capacity to yes at 2020-01-22 16:48:48.0
joannag Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-01-21 20:58:18.0
joannag Added Phages DB Evidence Phage Name: Tempo_Draft Function: function unknown at 2020-01-21 20:58:18.0
joannag Added Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-01-21 20:58:18.0
joannag Added Phages DB Evidence Phage Name: Kelcole_Draft Function: function unknown at 2020-01-21 20:58:18.0
joannag Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-21 20:58:18.0
joannag Added Phages DB Evidence Phage Name: Nike_Draft Function: function unknown at 2020-01-21 20:58:18.0
joannag Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-21 20:58:18.0
joannag Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-21 20:58:18.0
joannag Added Phages DB Evidence Phage Name: Casend_Draft Function: function unknown at 2020-01-21 20:58:18.0
joannag Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-21 20:58:18.0
joannag changed the gene function to NKF at 2020-01-21 20:58:18.0
joannag changed synteny to This gene shows two different function such as protein kinase and hypothetical protein according to HHpred. at 2020-01-21 20:58:18.0
joannag changed starterator analysis to SS at 2020-01-21 20:58:18.0

Gene Number: 88
dcedwards Added HHPRED Evidence Accession: 1PFT_A Description: TFIIB; N-TERMINAL DOMAIN, TFIIB, TRANSCRIPTION INITIATION; HET: ZN; NMR {Pyrococcus furiosus} SCOP: g.41.3.1 Query Range: (60-112) Target Range: (3-49) at 2020-05-06 18:27:16.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:11:56.0
joannag Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-23 15:46:00.0
joannag Added CDD Evidence Accession: PRK14714 Query Range: (40-132) Target Range: (640-719) at 2020-01-23 15:46:00.0
joannag Added NCBI BLAST Evidence Accession: WP_047523115 Query Range: (1-134) Target Range: (3-129) at 2020-01-23 15:46:00.0
joannag Added HHPRED Evidence Accession: PF10083.9 Description: DUF2321 ; Uncharacterized protein conserved in bacteria (DUF2321) Query Range: (62-122) Target Range: (5-72) at 2020-01-23 15:46:00.0
j0ce1yn changed synteny to NCBI found only matches for hypothetical proteins in Hyperion, Squash, and others. Pharmerator showed gene in a similar location as Hyperion: gene 72. HHPred visualization was found approximately half red and presented a prediction of zinc ribbons, but was considered not applicable. at 2020-01-20 05:57:24.0
j0ce1yn changed the gene function to NKF at 2020-01-18 22:05:26.0
j0ce1yn changed the coding capacity to yes at 2020-01-18 21:31:02.0
j0ce1yn changed starterator analysis to SS at 2020-01-18 21:31:02.0

Gene Number: 89
dcedwards Added HHPRED Evidence Accession: 1FA2_A Description: BETA-AMYLASE (E.C.3.2.1.2); TIM barrel, HYDROLASE; HET: DOM; 2.3A {Ipomoea batatas} SCOP: c.1.8.1 Query Range: (80-126) Target Range: (299-352) at 2020-05-06 18:27:40.0
faith changed the coding capacity to yes at 2020-05-06 17:40:32.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:43:35.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03604 Query Range: (1-145) Target Range: (1-141) at 2020-05-05 19:43:35.0
dcedwards Added HHPRED Evidence Accession: 3VOC_A Description: Beta/alpha-amylase (E.C.3.2.1.2); TIM barrel, amylase, carbohydrate metabolism; HET: GOL, TRS, EDO; 1.95A {Paenibacillus polymyxa} Query Range: (80-134) Target Range: (281-338) at 2020-05-05 19:43:35.0
alonnndramtz changed the gene function to NKF at 2020-01-27 12:27:46.0
alonnndramtz changed starterator analysis to SS at 2020-01-27 12:27:46.0

Gene Number: 90
dcedwards Added HHPRED Evidence Accession: 4UXG_C Description: LARGE TAIL FIBER PROTEIN P34; VIRAL PROTEIN, CAUDOVIRALES, MYOVIRIDAE, TRIPLE; 3.0A {ENTEROBACTERIA PHAGE T4} Query Range: (14-38) Target Range: (383-407) at 2020-05-06 18:28:00.0
faith changed the coding capacity to yes at 2020-05-06 17:41:09.0
dcedwards Added Phages DB Evidence Phage Name: Adora Function: function unknown at 2020-05-05 19:12:15.0
dcedwards Added NCBI BLAST Evidence Accession: TXH09345 Query Range: (88-203) Target Range: (94-178) at 2020-05-05 19:12:15.0
sam_munoz607 Added Phages DB Evidence Phage Name: Adora Function: function unknown at 2020-01-27 02:30:41.0
sam_munoz607 Added HHPRED Evidence Accession: PF09535.10 Description: Gmx_para_CXXCG ; Protein of unknown function (Gmx_para_CXXCG) Query Range: (146-185) Target Range: (4-44) at 2020-01-27 02:30:41.0
sam_munoz607 changed the coding capacity to no at 2020-01-27 02:30:41.0
sam_munoz607 changed starterator analysis to SS at 2020-01-27 02:30:41.0
sam_munoz607 changed the gene function to NKF at 2020-01-18 21:12:46.0
sam_munoz607 changed note to Frequency is 67% for a portal protein. Data from Blastp shows that it could be an unknown protein. HHpred data has a 72% probability of being an unknown protein. at 2020-01-18 21:12:46.0
sam_munoz607 changed synteny to Comparing it to similar genes from similar phages, the function of the gene is still not known. HHpred results in a 72% probability of an unknown protein. at 2020-01-18 21:12:46.0

Gene Number: 91
dcedwards Added HHPRED Evidence Accession: 4LH9_A Description: Heterocyst differentiation control protein (E.C.3.4.21.-); single helix, loop packing around; 2.049A {Nostoc} Query Range: (21-36) Target Range: (12-27) at 2020-05-06 18:28:12.0
faith changed the coding capacity to yes at 2020-05-06 17:44:16.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-05 19:28:15.0
dcedwards Removed HHPRED Evidence Accession: PF11906.8 Description: DUF3426 ; Protein of unknown function (DUF3426) Query Range: (51-69) Target Range: (91-109) at 2020-05-05 19:28:15.0
sam_munoz607 changed synteny to phagesdb frequency shows an equal percentage for five possible functions. Bacteriophage (squash) is the closest related phage and it shows an unknown function. at 2020-01-27 01:05:20.0
sam_munoz607 changed synteny to phagesdb frequency shows an equal percentage for five possible functions. Bacteriophage (squash) at 2020-01-27 01:04:16.0
aequirl Removed Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-22 17:37:50.0
aequirl Removed Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 17:37:50.0
sam_munoz607 Added HHPRED Evidence Accession: PF11906.8 Description: DUF3426 ; Protein of unknown function (DUF3426) Query Range: (51-69) Target Range: (91-109) at 2020-01-22 15:52:52.0
sam_munoz607 Added HHPRED Evidence Accession: 4LH9_A Description: Heterocyst differentiation control protein (E.C.3.4.21.-); single helix, loop packing around; 2.049A {Nostoc} Query Range: (21-36) Target Range: (12-27) at 2020-01-22 15:52:52.0
sam_munoz607 changed the coding capacity to no at 2020-01-22 15:52:52.0
sam_munoz607 changed starterator analysis to SS at 2020-01-22 15:52:52.0
chloeogrady Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-18 21:53:07.0
chloeogrady Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-18 21:53:07.0
chloeogrady Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-18 21:53:07.0
chloeogrady Added NCBI BLAST Evidence Accession: AWN04713 Query Range: (1-76) Target Range: (1-75) at 2020-01-18 21:53:07.0
chloeogrady changed the gene function to NKF at 2020-01-18 21:53:07.0
chloeogrady changed note to The gene was compared to a similar gene of bacteriophages in the same cluster. However, Phagesdb believes that this protein has a function. NCBI has provided the bacteriophage Squash with a percent identity of almost 70% to justify this classification. at 2020-01-18 21:53:07.0
chloeogrady changed synteny to This protein has an unknown function, so it can be classified as NKF. at 2020-01-18 21:53:07.0

Gene Number: 92
dcedwards Added HHPRED Evidence Accession: PF13991.6 Description: BssS ; BssS protein family Query Range: (43-64) Target Range: (44-65) at 2020-05-06 18:30:40.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-05-05 19:12:28.0
dcedwards Added HHPRED Evidence Accession: PF13991.6 Description: BssS ; BssS protein family Query Range: (43-64) Target Range: (44-65) at 2020-05-05 19:12:28.0
kristinsefcik Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-01-22 16:10:54.0
kristinsefcik Added NCBI BLAST Evidence Accession: AYB70207 Query Range: (1-57) Target Range: (1-57) at 2020-01-22 16:10:54.0
aequirl changed the gene function to NKF at 2020-01-18 23:33:01.0
aequirl changed note to No data available when refreshed. at 2020-01-18 23:33:01.0
aequirl changed the coding capacity to yes at 2020-01-18 23:33:01.0
aequirl changed synteny to NCBI Blastp showed hypothetical protein. HHpred provided no further discovery. at 2020-01-18 23:33:01.0
aequirl changed starterator analysis to SS at 2020-01-18 23:33:01.0

Gene Number: 93
dcedwards Added HHPRED Evidence Accession: 6FXD_A Description: MupZ; epoxide hydrolase, BIOSYNTHETIC PROTEIN; 1.45A {Pseudomonas fluorescens} Query Range: (30-96) Target Range: (32-91) at 2020-05-06 18:31:02.0
dcedwards Added Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-05-05 19:36:32.0
dcedwards Added HHPRED Evidence Accession: PF15080.6 Description: DUF4547 ; Domain of unknown function (DUF4547) Query Range: (21-42) Target Range: (103-125) at 2020-05-05 19:36:32.0
aequirl Added Phages DB Evidence Phage Name: OneinaGillian Function: function unknown at 2020-01-22 17:50:11.0
aequirl Added NCBI BLAST Evidence Accession: AYB70208 Query Range: (1-105) Target Range: (1-105) at 2020-01-22 17:50:11.0
aequirl changed the coding capacity to yes at 2020-01-22 17:50:11.0
aequirl changed starterator analysis to SS at 2020-01-22 17:50:11.0
kristinsefcik changed the gene function to NKF at 2020-01-18 20:32:58.0
kristinsefcik changed note to All similar phages have unknown functions. at 2020-01-18 20:32:58.0

Gene Number: 94
dcedwards Added HHPRED Evidence Accession: 5DJQ_M Description: Cbb3-type cytochrome c oxidase subunit; oxidoreductase, cbb3-cytochrome c oxidase, Pseudomonas_stutzeri; HET: HEM, HEC, FC6, PO4; 3.2A {Pseudomonas stutzeri} Query Range: (1-26) Target Range: (1-26) at 2020-05-06 18:31:29.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-05 19:12:42.0
dcedwards Added HHPRED Evidence Accession: 5DJQ_M Description: Cbb3-type cytochrome c oxidase subunit; oxidoreductase, cbb3-cytochrome c oxidase, Pseudomonas_stutzeri; HET: HEM, HEC, FC6, PO4; 3.2A {Pseudomonas stutzeri} Query Range: (1-26) Target Range: (1-26) at 2020-05-05 19:12:42.0
kristinsefcik Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-22 16:23:04.0
kristinsefcik Added NCBI BLAST Evidence Accession: QED11911 Query Range: (1-45) Target Range: (1-45) at 2020-01-22 16:23:04.0
kristinsefcik changed starterator analysis to SS at 2020-01-22 16:23:04.0
gspotz changed the gene function to NKF at 2020-01-18 21:37:23.0
gspotz changed the coding capacity to yes at 2020-01-18 21:37:23.0
gspotz changed synteny to This gene has an unknown function, because it is does not have a strong probability on HHpred or Blastp indicating it’s similarity to one particular protein. at 2020-01-18 21:37:23.0

Gene Number: 95
dcedwards Added HHPRED Evidence Accession: PF04009.12 Description: DUF356 ; Protein of unknown function (DUF356) Query Range: (41-73) Target Range: (16-48) at 2020-05-06 18:37:08.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-05 19:36:56.0
dcedwards Added HHPRED Evidence Accession: 2J8P_A Description: CLEAVAGE STIMULATION FACTOR 64 KDA; CLEAVAGE/POLYADENYLATION, ALTERNATIVE SPLICING RNA15, PCF11; NMR {HOMO SAPIENS} Query Range: (19-49) Target Range: (16-46) at 2020-05-05 19:36:56.0
tannerjtaylor changed synteny to The format is very similar to Squash gene 99. at 2020-01-20 04:25:44.0
tannerjtaylor Added HHPRED Evidence Accession: PF04009.12 Description: DUF356 ; Protein of unknown function (DUF356) Query Range: (32-73) Target Range: (7-48) at 2020-01-20 04:18:16.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-20 04:10:48.0
tannerjtaylor Added NCBI BLAST Evidence Accession: AWN04717 Query Range: (1-74) Target Range: (1-74) at 2020-01-20 04:10:48.0
tannerjtaylor changed the gene function to NKF at 2020-01-20 04:10:48.0
tannerjtaylor changed note to All reports conflict, but it is similar to a hypothetical protein from Squash at 2020-01-20 04:10:48.0
tannerjtaylor changed synteny to The format is very similar to Squash gene 92 at 2020-01-20 04:10:48.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-20 04:00:09.0
tannerjtaylor changed the coding capacity to yes at 2020-01-20 04:00:09.0
tannerjtaylor changed starterator analysis to SS at 2020-01-20 04:00:09.0

Gene Number: 96
dcedwards Added HHPRED Evidence Accession: cd16378 Description: CcmH_N; N-terminal domain of cytochrome c-type biogenesis protein CcmH and related proteins. Query Range: (32-65) Target Range: (29-62) at 2020-05-06 18:38:28.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-05 19:17:25.0
skyler Added NCBI BLAST Evidence Accession: AWN04718 Query Range: (1-151) Target Range: (9-158) at 2020-01-27 06:03:06.0
skyler Added HHPRED Evidence Accession: cd16378 Description: CcmH_N; N-terminal domain of cytochrome c-type biogenesis protein CcmH and related proteins. Query Range: (32-65) Target Range: (29-62) at 2020-01-27 06:03:06.0
gvazquez Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-18 22:28:14.0
gvazquez changed the gene function to NKF at 2020-01-18 22:28:14.0
gvazquez changed note to Based on the given data on NCBI there is not known function on this gene. The hypothetical has a very high percent identity at 72.85% than the rest. Based on the HHpred there is a probability of of 81.5 that it is a biogenesis protein, but the phagesDB plast does not indicate a similar protein on the given phages with similar functions. at 2020-01-18 22:28:14.0
gvazquez changed the coding capacity to yes at 2020-01-18 22:28:14.0
gvazquez changed synteny to Based on the gene 96 and the phamerator. The closest phage with similar function is Mashley, although it are different in gene number by 1, it still shows a similar sequence and length. at 2020-01-18 22:28:14.0
gvazquez changed starterator analysis to SS at 2020-01-18 22:28:14.0

Gene Number: 97
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-06 18:38:41.0
dcedwards Added HHPRED Evidence Accession: PF14804.6 Description: Jag_N ; Jag N-terminus Query Range: (40-58) Target Range: (5-23) at 2020-05-06 18:38:41.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-05 19:37:10.0
gvazquez Removed Phages DB Evidence Phage Name: ThreeRngTarjay Function: function unknown at 2020-01-27 20:33:44.0
gvazquez Added HHPRED Evidence Accession: PF14804.6 Description: Jag_N ; Jag N-terminus Query Range: (40-58) Target Range: (5-23) at 2020-01-27 20:33:44.0
gvazquez changed note to Based on HH pred, there’s a 77.92% probability that the protein is not characterize. NCBI blast shows 70.0% hypothetical protein (NKF). at 2020-01-27 20:33:44.0
gvazquez changed synteny to The phamarator shows a close relationship between the gene 96 of Mashley and Fizzles base on length and position. at 2020-01-27 20:33:44.0
aequirl Removed Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-22 17:51:24.0
aequirl Removed Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 17:51:24.0
aequirl Removed Phages DB Evidence Phage Name: BAKA Function: function unknown at 2020-01-22 17:51:24.0
aequirl Removed Phages DB Evidence Phage Name: Lucky2013 Function: function unknown at 2020-01-22 17:51:24.0
aequirl Removed Phages DB Evidence Phage Name: Duke13 Function: function unknown at 2020-01-22 17:51:24.0
aequirl Removed Phages DB Evidence Phage Name: Constella Function: function unknown at 2020-01-22 17:51:24.0
aequirl Removed Phages DB Evidence Phage Name: Courthouse Function: function unknown at 2020-01-22 17:51:24.0
aequirl Removed Phages DB Evidence Phage Name: Hughesyang Function: function unknown at 2020-01-22 17:51:24.0
aequirl Added NCBI BLAST Evidence Accession: QED11913 Query Range: (1-90) Target Range: (1-90) at 2020-01-22 17:51:24.0
aequirl changed the coding capacity to yes at 2020-01-22 17:51:24.0
kristinsefcik Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-18 21:01:10.0
kristinsefcik Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-18 21:01:10.0
kristinsefcik Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-18 21:01:10.0
kristinsefcik Added Phages DB Evidence Phage Name: ThreeRngTarjay Function: function unknown at 2020-01-18 21:01:10.0
kristinsefcik Added Phages DB Evidence Phage Name: BAKA Function: function unknown at 2020-01-18 21:01:10.0
kristinsefcik Added Phages DB Evidence Phage Name: Constella Function: function unknown at 2020-01-18 21:01:10.0
kristinsefcik Added Phages DB Evidence Phage Name: Courthouse Function: function unknown at 2020-01-18 21:01:10.0
kristinsefcik Added Phages DB Evidence Phage Name: Duke13 Function: function unknown at 2020-01-18 21:01:10.0
kristinsefcik Added Phages DB Evidence Phage Name: Hughesyang Function: function unknown at 2020-01-18 21:01:10.0
kristinsefcik Added Phages DB Evidence Phage Name: Lucky2013 Function: function unknown at 2020-01-18 21:01:10.0
kristinsefcik changed the gene function to NKF at 2020-01-18 21:01:10.0
kristinsefcik changed note to Function is expected to be unknown due to the most similar phages all being unknown. at 2020-01-18 21:01:10.0
kristinsefcik changed starterator analysis to SS at 2020-01-18 21:01:10.0

Gene Number: 98
dcedwards Added HHPRED Evidence Accession: cd13650 Description: PBP2_THI5; Substrate binding domain of ABC-type transporters for thiamin biosynthetic pathway intermediates. Query Range: (7-46) Target Range: (208-247) at 2020-05-06 18:38:50.0
faith changed the coding capacity to yes at 2020-05-06 17:46:22.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:19:55.0
dcedwards Added NCBI BLAST Evidence Accession: AWN03613 Query Range: (4-117) Target Range: (5-115) at 2020-05-05 19:19:55.0
dcedwards Added HHPRED Evidence Accession: cd13650 Description: PBP2_THI5; Substrate binding domain of ABC-type transporters for thiamin biosynthetic pathway intermediates. Query Range: (7-46) Target Range: (208-247) at 2020-05-05 19:19:55.0
rebbabcock1 changed the gene function to NKF at 2020-01-18 21:05:19.0
rebbabcock1 changed note to Could be a tail assembly chaperone because it contains a 100% frequency at 2020-01-18 21:05:19.0

Gene Number: 99
dcedwards Added Phages DB Evidence Phage Name: WaterT Function: function unknown at 2020-05-06 18:39:03.0
dcedwards Added HHPRED Evidence Accession: 4DPO_B Description: Conserved protein; Structural Genomics, PSI-Biology, New York; HET: MSE; 2.73A {Methanosarcina mazei} Query Range: (13-97) Target Range: (11-98) at 2020-05-06 18:39:03.0
dcedwards Added Phages DB Evidence Phage Name: WaterT Function: function unknown at 2020-05-05 19:37:39.0
dcedwards Added NCBI BLAST Evidence Accession: WP_165049336 Query Range: (2-51) Target Range: (48-102) at 2020-05-05 19:37:39.0
tannerjtaylor Added HHPRED Evidence Accession: 2FIU_B Description: conserved hypothetical protein; alpha-beta, dimeric alpha-beta barrels, Structural; 2.0A {Agrobacterium tumefaciens str.} SCOP: d.58.4.16 Query Range: (73-96) Target Range: (55-78) at 2020-01-20 04:25:09.0
tannerjtaylor changed note to There was no matches on NCBI and the HHpred matches were of very low percent. at 2020-01-20 04:25:09.0
tannerjtaylor changed synteny to There are no similar genes. at 2020-01-20 04:25:09.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-20 04:23:17.0
tannerjtaylor changed the gene function to NKF at 2020-01-20 04:23:17.0
tannerjtaylor changed note to There was no matches on NCBI and the HHpred matches were of very low percent at 2020-01-20 04:23:17.0
tannerjtaylor changed synteny to There are no similar proteins. at 2020-01-20 04:23:17.0
tannerjtaylor Added Phages DB Evidence Phage Name: Fizzles_Draft Function: function unknown at 2020-01-20 04:21:49.0
tannerjtaylor changed the coding capacity to yes at 2020-01-20 04:21:49.0
tannerjtaylor changed starterator analysis to SS at 2020-01-20 04:21:49.0

Gene Number: 100
dcedwards Added HHPRED Evidence Accession: PF05887.11 Description: Trypan_PARP ; Procyclic acidic repetitive protein (PARP) Query Range: (1-97) Target Range: (1-107) at 2020-05-06 18:39:12.0
faith changed the coding capacity to yes at 2020-05-06 17:49:37.0
dcedwards Added Phages DB Evidence Phage Name: RubyRalph Function: function unknown at 2020-05-05 19:26:26.0
dcedwards Added NCBI BLAST Evidence Accession: QIG59109 Query Range: (19-148) Target Range: (84-187) at 2020-05-05 19:26:26.0
dcedwards Added HHPRED Evidence Accession: 5VJ4_A Description: PR-1 protein; Relapsing fever, LIPID BINDING PROTEIN; HET: SO4, MSE; 2.8A {Borrelia turicatae} Query Range: (32-119) Target Range: (14-103) at 2020-05-05 19:26:26.0
sam_munoz607 changed the gene function to NKF at 2020-01-18 21:25:10.0
sam_munoz607 changed note to Blastp found no significant similarities. Phamerator does not show useful relating to fizzle’s gene 100 function. HHpred shows 96% probability of being a lipid binding protein. Has a 25% frequency of a rect-like protein. at 2020-01-18 21:25:10.0
sam_munoz607 changed synteny to All data seems to point to something different from each other. Blastp does not show any similarities. HHpred has a high probability of being a lipid binding protein. When compared to similar phages, they do not show a function. at 2020-01-18 21:25:10.0

Gene Number: 101
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-06 18:39:22.0
dcedwards Added HHPRED Evidence Accession: 4PGA_A Description: GLUTAMINASE-ASPARAGINASE; BACTERIAL AMIDOHYDROLASE; HET: SO4; 1.7A {Pseudomonas sp. 7A} SCOP: c.88.1.1 Query Range: (6-18) Target Range: (89-101) at 2020-05-06 18:39:22.0
dcedwards Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-05-05 19:37:52.0
sam_munoz607 Added HHPRED Evidence Accession: 4PGA_A Description: GLUTAMINASE-ASPARAGINASE; BACTERIAL AMIDOHYDROLASE; HET: SO4; 1.7A {Pseudomonas sp. 7A} SCOP: c.88.1.1 Query Range: (3-18) Target Range: (86-101) at 2020-01-27 02:19:23.0
sam_munoz607 changed note to HHpred gives a 51% probability of it being a Phosphoribosyl-AMP cyclohydrolase though the NCBI blast and phagesdb blast show that it is an unknown function. at 2020-01-27 02:19:23.0
sam_munoz607 changed starterator analysis to SS at 2020-01-27 02:19:23.0
kristinsefcik Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 16:25:58.0
kristinsefcik Added NCBI BLAST Evidence Accession: AWN03615 Query Range: (1-29) Target Range: (1-29) at 2020-01-22 16:25:58.0
kristinsefcik changed starterator analysis to NA at 2020-01-22 16:25:58.0
gspotz changed the gene function to NKF at 2020-01-18 21:45:51.0
gspotz changed the coding capacity to no at 2020-01-18 21:45:51.0
gspotz changed synteny to This gene has an unknown function, because it is does not have a strong probability on HHpred or Blastp indicating it’s similarity to one particular protein. at 2020-01-18 21:45:51.0

Gene Number: 102
dcedwards Added HHPRED Evidence Accession: PF03645.13 Description: Tctex-1 ; Tctex-1 family Query Range: (51-62) Target Range: (66-77) at 2020-05-06 18:39:32.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-05 19:26:46.0
skyler Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-27 07:07:17.0
skyler Added NCBI BLAST Evidence Accession: QED11918 Query Range: (1-79) Target Range: (22-100) at 2020-01-27 07:07:17.0
skyler Added HHPRED Evidence Accession: PF03645.13 Description: Tctex-1 ; Tctex-1 family Query Range: (51-62) Target Range: (66-77) at 2020-01-27 07:07:17.0
skyler changed the gene function to NKF at 2020-01-21 02:47:40.0
skyler changed the coding capacity to yes at 2020-01-21 02:47:40.0
skyler changed synteny to No conclusive evidence on Phamerator, NCBI, or HHpred. at 2020-01-21 02:47:40.0
skyler changed starterator analysis to SS at 2020-01-21 02:47:40.0

Gene Number: 103
dcedwards Added HHPRED Evidence Accession: PF04673.12 Description: Cyclase_polyket ; Polyketide synthesis cyclase Query Range: (23-41) Target Range: (2-20) at 2020-05-06 18:39:40.0
dcedwards Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-05-05 19:38:07.0
joannag changed synteny to This gene is has a function of unknown because in blast it has a probability of hypothetical protein but in HHpred it contains another protein. at 2020-01-27 17:05:16.0
joannag Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-27 16:56:07.0
joannag Added NCBI BLAST Evidence Accession: QED11919 Query Range: (1-65) Target Range: (1-65) at 2020-01-27 16:56:07.0
joannag Added HHPRED Evidence Accession: 1TUW_A Description: Tetracenomycin polyketide synthesis protein tcmI; dimeric ??? ferredoxin-like fold tetracenomycin; 1.9A {Streptomyces glaucescens} SCOP: d.58.4.8 Query Range: (23-41) Target Range: (4-22) at 2020-01-27 16:56:07.0
joannag changed the gene function to NKF at 2020-01-27 16:56:07.0
skyler Removed Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-27 07:23:37.0
skyler Removed NCBI BLAST Evidence Accession: QED11919 Query Range: (1-65) Target Range: (1-65) at 2020-01-27 07:23:37.0
skyler Removed HHPRED Evidence Accession: PF04673.12 Description: Cyclase_polyket ; Polyketide synthesis cyclase Query Range: (23-41) Target Range: (2-20) at 2020-01-27 07:23:37.0
skyler changed the gene function to at 2020-01-27 07:23:37.0
skyler changed synteny to at 2020-01-27 07:23:37.0
skyler changed the coding capacity to yes at 2020-01-27 07:11:38.0
skyler changed starterator analysis to SS at 2020-01-27 07:11:38.0
skyler Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-27 07:09:51.0
skyler Added NCBI BLAST Evidence Accession: QED11919 Query Range: (1-65) Target Range: (1-65) at 2020-01-27 07:09:51.0
skyler Added HHPRED Evidence Accession: PF04673.12 Description: Cyclase_polyket ; Polyketide synthesis cyclase Query Range: (23-41) Target Range: (2-20) at 2020-01-27 07:09:51.0
skyler changed the gene function to NKF at 2020-01-27 07:09:51.0
skyler changed synteny to No conclusive evidence on Phamerator, NCBI, or HHpred. at 2020-01-27 07:09:51.0

Gene Number: 104
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-06 02:53:35.0
dcedwards Added HHPRED Evidence Accession: PF09278.11 Description: MerR-DNA-bind ; MerR, DNA binding Query Range: (63-114) Target Range: (2-54) at 2020-05-06 02:53:35.0
dcedwards Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-05-05 19:27:29.0
dcedwards Added HHPRED Evidence Accession: PF09278.11 Description: MerR-DNA-bind ; MerR, DNA binding Query Range: (63-114) Target Range: (2-54) at 2020-05-05 19:27:29.0
aequirl Removed Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-22 17:38:38.0
aequirl Removed Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-22 17:38:38.0
aequirl Removed NCBI BLAST Evidence Accession: QED11920 Query Range: (38-267) Target Range: (6-231) at 2020-01-22 17:38:38.0
aequirl Removed NCBI BLAST Evidence Accession: AWN03619 Query Range: (38-260) Target Range: (6-227) at 2020-01-22 17:38:38.0
sam_munoz607 Added HHPRED Evidence Accession: 2EV4_A Description: Hypothetical protein Rv1264/MT1302 (E.C.4.6.1.1); Alpha-helical, Regulatory Domain of Adenylyl; HET: OLA; 2.28A {Mycobacterium tuberculosis} Query Range: (58-87) Target Range: (34-61) at 2020-01-22 15:55:43.0
sam_munoz607 changed the coding capacity to yes at 2020-01-22 15:55:43.0
sam_munoz607 changed starterator analysis to SS at 2020-01-22 15:55:43.0
chloeogrady Added Phages DB Evidence Phage Name: Hyperion Function: function unknown at 2020-01-18 22:06:51.0
chloeogrady Added Phages DB Evidence Phage Name: Mashley Function: function unknown at 2020-01-18 22:06:51.0
chloeogrady Added Phages DB Evidence Phage Name: Squash Function: function unknown at 2020-01-18 22:06:51.0
chloeogrady Added NCBI BLAST Evidence Accession: AWN04726 Query Range: (38-267) Target Range: (6-231) at 2020-01-18 22:06:51.0
chloeogrady Added NCBI BLAST Evidence Accession: QED11920 Query Range: (38-267) Target Range: (6-231) at 2020-01-18 22:06:51.0
chloeogrady Added NCBI BLAST Evidence Accession: AWN03619 Query Range: (38-260) Target Range: (6-227) at 2020-01-18 22:06:51.0
chloeogrady changed the gene function to NKF at 2020-01-18 22:06:51.0
chloeogrady changed note to Phagesdb lists this protein as a tape measure protein. However, comparisons through NCBI and HHpred prove that this gene has an unknown function. at 2020-01-18 22:06:51.0
chloeogrady changed synteny to This protein has no known function and is therefore classified as NKF. at 2020-01-18 22:06:51.0