Skip to main content

Table 2 Comparison of ΦSH19 proteins with those of Vi01 and SboM-AG3

From: Salmonella Typhimurium-specific bacteriophage ΦSH19 and the origins of species specificity in the Vi01-like phage family

CDS ΦSH19 coordinates & amino acid length Predicted
MW
Pfam domain Amino acid ID with Vi01 Amino acid ID with SboM-AG3
RIIA 1-2742 (913) 104,992 None 98% 54%
RIIB 2775-4358 (527) 58,980 None 97% 69%
Putative tail fibre 5502-6311 (269) 27,826 Ig-like I-set domain (CL0011) 86% 86%
DNA topoisomerase II 8523-10,436 (637) 71,862 HATPase c (CL0025) & DNA gyrase B 96% 90%
DNA topoisomerase II (medium subunit) 10,357-11,769 (470) 53,939 DNA topoisomerase IV 88% 88%
Conserved uncharacterized protein 13,309-13,929 (206) 23,005 Putative Macro domain of ADP-ribose binding module (CL0233) 92% 74%
DexA exonuclease 14,263-14,895 (210) 24,438 None 95% 93%
dCMP deaminase 18,704-19,225 (173) 19,460 dCMP cytosine deaminase 1 family-cytidine & deoxycytidylate deaminase Zn-binding domain (CL0109) 97% 62%
Conserved uncharacterized protein 19,227-19,634 (135) 15,378 Bacterial membrane-flanked domain (DUF304) 93% 88%
Head completion protein 19,845-20,465c (206) 24,189 None 92% 74%
Putative homing endonuclease 20,465-21,205c (246) 28,205 GIY-YIG catalytic domain (CL0418) No match 34%
T4-like baseplate tail tube cap 21,259-22,227 (322) 36,142 T4 tail cap family 100% 94%
Baseplate wedge subunit 22,240-22,797 (185) 21,574 Phage Gp53 family 97% 80%
Loader of T4-like helicase 26,134-26,796c (220) 26,253 T4 helicase N family 99% 79%
DNA ligase 27,281-28,708c (475) 53,501 ATP-dependent DNA ligase domain (CL0078) 95% 83%
DNA primase-helicase subunit 31,451-32,875c (474) 54,192 DnaB-like helicase N & C terminal domains 98% 88%
UvsX (RecA-like protein) 33,189-34,274c (361) 40,791 RecA bacterial DNA recombination proteins (CL0023) 72% 78%
dUTPase 34,789-35,340c (183) 21,114 dUTPase 2 family(CL0231) 69% 63%
Thymidylate synthase 35,903-36,943c (346) 39,216 Thymidylate synthase family 93% 77%
DNA end protector 39,924-40,268c (234) 28,347 None 100% 91%
Baseplate tail tube 40,488-41,624 (378) 42,658 Phage T4 Gp19 family 98% 90%
ssDNA binding protein 41,652-42,683c (343) 38,896 Gp3 DNA binding protein-like domain 98% 77%
Late promoter transcription factor 43,029-43,331c (100) 11,175 None 100% 70%
Regulatory protein (FmdB family) 43,264-43,509c (81) 8732 CXXC CXXC SSSS family containing a Zn ribbon domain (CL0167) 96% 88%
Putative uncharacterized protein 43,875-44,396c (203) 23,739 RuvC family (crossover junction endoribonuclease RuvC) 100% 83%
Baseplate hub subunit 45,471-46,274 (267) 30,186 T4 baseplate family 96% 67%
Tail-associated lysozyme 46,781-48,406 (541) 59,023 Gp5 OB family & CHAP domain (CL0125) associated with peptidoglycan hydrolysis 98% 87%
Baseplate wedge protein 48,471-48,851 (126) 14,124 GPW Gp25 family (gene 25-like lysozyme) 97% 87%
NrdB 50,229-51,332c (367) 42,209 Ribonucleotide reductase small chain domain (CL0044) 99% 89%
NrdA 51,403-53,730c (775) 88,137 ATP-cone domain, ribonucleotide reductase IgN all alpha domain & IgC barrel domain 94% 89%
PhoH-like phosphate starvation-inducible protein 53,764-54,603c (279) 31,567 PhoH-like protein family (CL0023) 100% 88%
Peptidoglycan binding protein 54,711-55,505c (264) 28,815 Peptidoglycan binding protein domain (CL0244) & protein of unknown function (DUF3380) 98% 86%
DNA primase subunit 56,712-57,776c (354) 41,386 None 97% 77%
Conserved uncharacterized protein 63,656-64,273c (205) 22,902 T4 RegB endoribonuclease family (CL0037) 98% 79%
NrdA.1 64,978-65,313c (336) 12,934 None 94% 92%
Recombination endonuclease subunit 65,622-67,955c (777) 88,531 None 98% 72%
Recombination protein subunit 67,958-69,073c (371) 43,030 None 98% 91%
σ factor for late transcription 69,060-69,854c (264) 30,775 None 90% 77%
Putative homing endonuclease 69,854-70,576c (240) 27,188 None No match 36%
RNase H 70,587-71,114c (175) 19,878 RNase H domain (CL0219) 97% 71%
ATP-dependent helicase 71,921-73,522c (533) 60,690 None 99% 86%
DNA binding protein 73,778-74,056c (92) 9728 Bacterial DNA-binding protein domain 100% 86%
Conserved uncharacterized protein 74,140-74,931c (263) 28,556 SPFH domain/Band 7 family (CL0433) 98% No match
Superinfection exclusion protein 75,137-75,457c (106) 12,562 None 95% No match
ImpD 75,736-76,407c (223) 25,665 None 95% 74%
Acyl carrier protein 80,335-80,687c (110) 12,162 Phosphoantetheine (PP)-binding family (CL0314) 92% 61%
Conserved uncharacterized protein 84,506-84,925c (139) 15,622 Protein of unknown function (DUF3268) 90% 84%
Putative RegA translational repressor 89,926-90,390c (154) 18,078 Bacteriophage translational regulator 99% 90%
Clamp loader for DNA polymerase 90,420-90,842c (140) 16,200 None 98% 76%
Gp44 sliding clamp holder 90,847-91,836c (329) 37,214 ATPase family (CL0023) 99% 87%
Gp45 sliding clamp holder 91,914-92,582c (222) 24,510 Gp45 sliding clamp C terminal 99% 82%
Putative type III restriction enzyme (RE) 93,293-94,792 (499) 57,802 Type III RE subunit (CL0023) & helicase conserved C terminal domain (CL0023) 95% 81%
Conserved uncharacterized protein 94,822-95,568c (248) 28,911 PD-(D/E)XK nuclease superfamily 97% 86%
Putative UvsY 95,568-96,023c (151) 17,991 UvsY protein family (recombination, repair, & ssDNA binding protein 93% 85%
Tail completion protein 96,062-96,559c (165) 18,542 T4 Gp19 family 98% 80%
Major capsid protein 101,588-102,910c (440) 48,059 Gp23 major capsid protein family 98% 94%
Prohead core scaffold protein 103,002-103,841c (279) 30,898 None 96% 74%
Prohead protease 103,888-104,556c (222) 24,482 Peptidase U9 family (CL0201) 99% 92%
Portal vertex protein of the head 105,102-106,784c (560) 63,094 T4 Gp20 family 99% 81%
Tail tube protein 106,852-107,385c (177) 19,912 T4 Gp19 family 100% 98%
GIY-YIG endonuclease 107,416-107,874c (152) 17,316 GIY-YIG catalytic domain endonuclease family (CL0418) 95% 32%
Tail sheath protein 107,933-109,828c (631) 68,439 Phage sheath 1 family 98% 92%
Large terminase subunit 109,881-112,091c (736) 84,547 Terminase 6 family 95% 85%
Small terminase subunit 112,072-112,752c (226) 24,825 DNA packaging family (terminase DNA packaging enzyme) 98% 74%
Proximal tail sheath stabilization 112,755-113,453c (232) 26,979 None 98% 80%
Gp14 neck protein 113,456-114,097c (213) 24,759 T4 neck protein family 100% 82%
Gp13 neck protein 114,400-115,209c (269) 31,142 None 99% 87%
Tail spike 1 120,710-122,641c (643) 68,851 None 67% (res. 1-171 only) 62% (res. 1-190 only)
Tail spike 2 122,702-124,876c (724) 78,194 Pectate lyase C (CL0268) 86% (res. 1-276 only) 73% (res. 1-161 only)
Tail spike 3 124,992-127,088c (698) 75,785 P22 tail spike family 86% (res. 1-154 only) 46% (res. 1-179 only)
Haemolysin-type calcium binding protein 127,168-130,209c (1013) 108,436 None 81% (res. 1-418 only) 63% (res. 1-404 only)
Baseplate wedge subunit 132,287-134,080c (597) 66,068 None 98% 79%
DNA polymerase 145,442-148,438 (998) 116,583 DNA polymerase family B exonuclease domains (CL0194 & CL0219) 98% 86%
Putative uncharacterized protein 148,776-149,615 (279) 32,346 NT5C family 5' nucleotidase deoxypyrimidine (CL0137) 97% 80%