Complete genome sequence of bacteriophage vB_YenP_AP5 which infects Yersinia enterocoliticaof serotype O:3

Leon-Velarde, Carlos G; Kropinski, Andrew M; Chen, Shu; Abbasifar, Arash; Griffiths, Mansel W; Odumeru, Joseph A

doi:10.1186/1743-422X-11-188

Virology Journal

Table 2 Yersiniophage AP5 gene annotations

From: Complete genome sequence of bacteriophage vB_YenP_AP5 which infects Yersinia enterocoliticaof serotype O:3

Gene name	ORF	Product	Start (bp)	Stop (bp)	pI	Protein mass (Da)	Function or Similarity	Evidence or Organism	Homolog (Accession number)	Id (%)	BlastP E-value
-	-	regulatory element	1	235	-	-	terminal repeat	-	-	-	-
-	-	regulatory element	550	580	-	-	promoter (sequence similarity to host promoter)	-	-	-	-
*0.3*	ORF1	S-adenosyl-L-methionine hydrolase	1,017	1,475	5.94	17171.56	DNA replication, repair and nucleotide metabolism	Yersinia phage phiYeO3-12	NP_052065	92.1	1.94e^-101
*0.6*	ORF2	hypothetical protein	1,748	1,951	10.5	7878.43	unknown	Yersinia phage phiYeO3-12	NP_052068	98.5	2.31e^-39
*0.65*	ORF3	hypothetical protein	1,938	2,108	11.4	6546.78	unknown	Enterobacteria phage T3	NP_523299	98.0	1.98e^-27
*0.7*	ORF4	protein kinase	2,123	3,232	7.19	42424.34	host transcription shutoff and Col Ib exclusion	Salmonella phage phiSG-JL2	YP_001949749	93.2	0
1	ORF5	RNA polymerase	3,303	5,957	7.10	98841.61	RNA replication, transcription and modification	Enterobacteria phage T3	NP_523301	99.3	0
*1.05*	ORF6	hypothetical protein	6,044	6,316	9.22	10529.28	unknown	Enterobacteria phage T3	NP_523302	92.2	2.75e^-53
*1.1*	ORF7	hypothetical protein	6,409	6,549	10.93	5887.54	unknown	Yersinia phage phiYeO3-12	NP_052073	95.7	1.26e^-22
*1.2*	ORF8	deoxyguanosine triphospho-hydrolase inhibitor	6,549	6,824	7.01	10433.64	hydrolyzes dGTP and may affect cellular pool of dGTP	Salmonella phage phiSG-JL2	YP_001949753	97.8	5.40e^-60
*1.3*	ORF9	DNA ligase	6,919	7,965	5.16	39618.14	DNA replication, recombination, and repair	Salmonella phage phiSG-JL2	YP_001949754	92.5	0
*1.6*	ORF10	hypothetical protein	8,135	8,392	11.20	9893.68	unknown	Yersinia phage phiYeO3-12	NP_052078	100	1.26e^-53
*1.7*	ORF11	hypothetical protein	8,392	8,871	9.38	17869.64	unknown	Yersinia phage phiYeO3-12	NP_052079	84.9	7.83e^-95
*1.8*	ORF12	hypothetical protein	8,858	8,995	5.14	5267.92	unknown	Yersinia phage phiYeO3-12	NP_052080	100	2.81e^-23
2	ORF13	Host RNA polymerase inhibitor	8,992	9,228	4.85	8839.87	inhibition of host RNA Polymerase	Salmonella phage phiSG-JL2	YP_001949759	100	2.40e^-27
*2.5*	ORF14	ssDNA binding protein	9,281	9,979	4.80	25965.80	helix-destabilizing protein	Yersinia phage phiYeO3-12	NP_052082	98.7	2.40e^-167
3	ORF15	endonuclease	9,979	10,440	9.58	17725.54	endonuclease I	Enterobacteria phage T7M	AFQ97046	98.0	1.14e^-103
*3.5*	ORF16	endolysin	10,433	10,888	9.03	16900.28	N-acetylmuramoyl-L-alanine amidase	Yersinia phage phiYeO3-12	NP_052084	100	9.21e^-109
4	ORF17	primase/helicase	11,255	12,769	5.11	55882.14	DNA replication	Yersinia phage phiYeO3-12	NP_052088	99.8	0
*4.3*	ORF18	hypothetical protein	12,865	13,077	10.00	7762.16	unknown	Enterobacteria phage T3	NP_523318	98.6	3.66e^-39
*4.5*	ORF19	hypothetical protein	13,090	13,374	9.89	10749.39	unknown	Yersinia phage phiYeO3-12	NP_052092	100	1.26^e-62
5	ORF20	DNA polymerase	13,442	15,556	6.42	79875.05	DNA replication	Salmonella phage phiSG-JL2	YP_001949769	99.0	0
*5.5*	ORF21	hypothetical protein	15,573	15,869	5.53	11022.78	unknown	Klebsiella phage KP32	YP_003347541	58.3	7.72^e-25
*5.7*	ORF22	hypothetical protein	15,866	16,075	9.81	7260.42	unknown	Yersinia phage phiYeO3-12	NP_052098	100	5.77^e-42
*5.9*	ORF23	host recBCD nuclease inhibitor	16,072	16,254	3.1	6742.48	Inhibits host recBCD nuclease	Yersinia phage phiYeO3-12	NP_072071	98.3	1.08^e-33
6	ORF24	exonuclease	16,251	17,162	4.98	34799.67	DNA Replication, repair, and recombination	Yersinia phage phiYeO3-12	NP_052100	99.3	0
*6.3*	ORF25	hypothetical protein	17,144	17,257	9.69	4111.08	unknown	Yersinia phage phiYeO3-12	NP_052102	97.3	8.79^e-15
*6.5*	ORF26	hypothetical protein	17,401	17,595	6.57	7458.47	unknown	Yersinia phage phiYeO3-12	NP_052103	100	6.28^e-38
*6.7*	ORF27	hypothetical protein	17,600	17,851	9.13	8833.96	unknown	Enterobacteria phage T3	NP_523330	98.8	1.76^e-49
*7.3*	ORF28	tail assembly protein	17,879	18,199	9.78	11003.70	scaffolding protein required for the assembly of tail fibers on capsids	Salmonella phage phiSG-JL2	YP_001949779	95.3	2.72^e-39
8	ORF29	head to tail joining protein	18,210	19,817	4.54	58649.37	bacteriophage head to tail connecting protein	Yersinia phage phiYeO3-12	NP_052106	100	0
9	ORF30	capsid assembly protein	19,919	20,851	4.24	33787.57	scaffolding protein required for the formation of pro-capsids.	Salmonella phage phiSG-JL2	YP_001949781	98.4	0
*10A*	ORF31	major capsid protein	21,008	22,054	7.11	36954.20	scaffolding protein	Yersinia phage phiYeO3-12	NP_052108	99.1	0
*10B*	ORF32	minor capsid protein	22,066	22,188	6.10	4295.84	scaffolding protein	Salmonella phage phiSG-JL2	YP_001949782	95.0	2.23^e-15
11	ORF33	tail tubular protein A	22,270	22,860	4.48	22233.69	required for assembly of tails of T7-like phages	Yersinia phage phiYeO3-12	NP_052110	100	1.00^e-141
12	ORF34	tail tubular protein B	22,876	25,281	6.11	89771.51	required for assembly of tails of T7-like phages	Yersinia phage phiYeO3-12	NP_052111	98.1	0
13	ORF35	internal virion protein A	25,354	25,779	5.37	16473.96	forms internal core of virion	Salmonella phage phiSG-JL2	YP_001949786	96.3	5.14^e-93
*13.5*	ORF36	hypothetical protein	25,766	26,155	9.02	14582.99	unknown	Yersinia phage phiYeO3-12	NP_072072	73.6	2.87^e-59
14	ORF 37	internal virion protein B	26,158	26,751	8.66	21308.02	forms internal core of virion	Yersinia phage phiYeO3-12	NP_052114	96.4	1.54^e-133
15	ORF38	internal virion protein C	26,754	28,997	5.47	85134.48	forms internal core of virion	Salmonella phage phiSG-JL2	YP_001949788	99.3	0
16	ORF39	internal virion protein D	29,016	32,978	8.41	143525.96	forms internal core of virion	Yersinia phage phiYeO3-12	NP_052116	98.9	0
17	ORF40	tail fiber protein	33,050	34,996	6.45	69728.57	host recognition binding protein	Yersinia phage phiYeO3-12	NP_052117	89.3	0
*17.5*	ORF41	holin	35,008	35,211	6.08	7360.50	holin, class II	Yersinia phage phiYeO3-12	NP_052118	94.0	2.79^e-37
18	ORF42	DNA packaging protein A	35,215	35,481	4.70	9888.31	DNA packaging	Salmonella phage phiSG-JL2	YP_001949792	100	1.01^e-55
*18.5*	ORF43	Phage λ Rz-like lysis protein (Rz/Rz1 equivalent)	35,570	36,022	9.41	16993.28	host lysis (via Rz/Rz1 spanins disrupting outer membrane)	Salmonella phage phiSG-JL2	YP_00194793	98.7	4.69^e-105
19	ORF44	DNA packaging protein B	35,997	37,760	5.32	66704.05	DNA packaging	Yersinia phage phiYeO3-12	NP_052122	99.8	0
*19.5*	ORF45	hypothetical protein	38,005	38,154	7.87	5441.55	unknown	Yersinia phage phiYeO3-12	NP_052125	98.0	1.78^e-24
-	-	regulatory element	38,412	38,646	-	-	terminal repeat	-	-	-	-

Genes are listed by number, along with their predicted function, if known, followed by the nature of the evidence that supports the functional classification. Genes with no functional prediction, but with significant (E <10^-5) sequence similarity to genes in the NCBI database as determined by BLASTP are listed, including the name of the organism in which the similar gene was found.

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ISSN: 1743-422X

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