. 2006 Feb;188(4):1419–1436. doi: 10.1128/JB.188.4.1419-1436.2006

TABLE 2.

List and annotation of Rtp ORFs

ORF	Nucleotides	Strand	Protein length (aa)	Related protein	BlastP^a				Description of related protein
ORF	Nucleotides	Strand	Protein length (aa)	Related protein	Score	E value	ID%	Overlap (aa)	Description of related protein
rtp1	546-1064	+	172	None
rtp2	1064-1123	+	19	None
rtp3	1120-1383	+	87	None
rtp4	1444-1983	+	179	YP_003880	184	7e-46	59	156	Putative polynucleotide kinase/phosphatase gp65 (phage T1)
				AAQ15454	106	3e-22	35	155	Hypothetical protein ORF229c (enterobacterial phage RB49)
				YP_006560	65	6e-10	31	151	Putative acid phosphatase Pap (phage P1)
rtp5	2102-2362	+	86	None
rtp6	2432-2524	+	30	AAD42660	47	1e-04	79	24	Stp activator of host PrrC lysyl-tRNA endonuclease (phage T4)
rtp7	2521-2745	+	74	None
rtp8	2742-2930	+	62	None
rtp9	2934-3080	+	48	YP_003941	54	1e-06	57	40	Hypothetical protein gp04 (phage T1)^b
rtp10	3152-3442	+	96	None
rtp11	3534-3713	+	59	None
rtp12	3765-3887	+	40	None
rtp13	3887-4030	+	47	None
rtp14	4101-4283	+	60	None
rtp15	4299-4535	+	78	YP_003886	58	7e-08	48	74	Hypothetical protein gp59 (phage T1)^b
rtp16	4997-5182	+	61	None
rtp17	5214-5366	+	50	YP_003889	45	5e-04	40	44	Hypothetical protein gp56 (phage T1)^b
rtp18	5457-5738	+	93	None
rtp19	5813-6319	+	168	YP_003891	171	5e-42	52	164	Putative terminase small subunit gp54 (phage T1)
				CAA09708	74	1e-12	30	110	Packaging protein gp3 (phage PS34)
rtp20	6388-6864	+	158	YP_003930	97	2e-19	38	162	Putative endonuclease gp15 (phage T1)
				YP_003937	90	2e-17	40	132	Putative endonuclease gp08 (phage T1)
				AAP58725	79	4e-14	40	132	57R (Xanthomonas oryzae phage Xp10)
rtp21	6857-8428	+	523	YP_003892	577	e-163	54	528	Putative terminase large subunit gp53 (phage T1)
				ZP_00168230	327	7e-88	37	496	COG5410; uncharacterized protein conserved in bacteria (Ralstonia eutropha JMP134)
				NP_852753	182	3e-44	30	468	Putative terminase large subunit TerL (phage Aaphi23)
rtp22	8500-8856	+	118	None
rtp23	8913-10181	+	422	YP_003893	458	e-127	56	401	Putative portal protein gp52 (phage T1)
				ZP_00321768	137	8e-31	26	372	COG3567; uncharacterized protein conserved in bacteria (Haemophilus influenzae 86-028NP)
rtp24	10234-10866	+	210	YP_003894	150	3e-35	36	217	Hypothetical protein gp51 (phage T1)^b
				NP_439559	61	2e-08	36	87	Plasmid RP4 TraN-related protein (Haemophilus influenzae Rd KW20)
rtp25	10880-11968	+	362	YP_003895	353	3e-96	53	370	Putative major head subunit precursor gp50 (phage T1)
				ZP_00321766	182	1e-44	36	337	COG3566; uncharacterized protein conserved in bacteria (Haemophilus influenzae 86-028NP)
				NP_108196	123	9e-27	34	347	Hypothetical protein mlr8006 (Mesorhizobium loti MAFF303099)
rtp26	11981-12460	+	159	YP_003896	107	1e-22	41	160	Hypothetical protein gp49 (phage T1)
				YP_003897	92	6e-18	38	152	Hypothetical protein gp48 (phage T1)
rtp27	12574-13518	+	314	YP_003898	296	5e-79	49	315	Hypothetical protein gp47 (phage T1)
				ZP_00321764	120	5e-26	28	307	COG4834; uncharacterized protein conserved in bacteria (Haemophilus influenzae 86-028NP)
rtp28	13610-13855	+	81	YP_003899	31		25	82	Hypothetical protein gp46 (phage T1)
rtp29	14007-14405	+	132	YP_003900	116	1e-25	47	127	Hypothetical protein gp45 (phage T1)^b
rtp30	14405-14776	+	123	YP_003901	89	3e-17	39	123	Hypothetical protein gp44 (phage T1)
				NP_405661	79	2e-14	40	101	Hypothetical protein YPO2113 (Yersinia pestis CO92)
rtp31	14769-15206	+	145	YP_003902	100	7e-21	41	139	Hypothetical protein gp43 (phage T1)
				NP_890030	72	3e-12	31	135	Phage-related conserved hypothetical protein (Bordetella bronchiseptica RB50)
rtp32	15208-15597	+	129	YP_003903	118	3e-26	47	109	Hypothetical protein gp42 (phage T1)
				NP_890029	42	0.002	30	79	Phage-related conserved hypothetical protein (Bordetella bronchiseptica RB50)
rtp33	15613-16269	+	218	YP_003904	233	2e-60	50	214	Putative major tail protein gp41 (phage T1)
				NP_405664	163	3e-39	41	208	Hypothetical protein YPO2116 (Yersinia pestis CO92)
rtp34	16380-16766	+	128	None
rtp35	16785-17099	+	104	YP_003905	105	3e-22	47	105	Hypothetical protein gp40 (phage T1)
				NP_405665	49	4e-05	29	100	Hypothetical protein YPO2117 (Yersinia pestis CO92)
				NP_881900	42	0.003	25	109	Phage-related conserved hypothetical protein (Bordetella pertussis)
rtp36	17108-17419	+	103	YP_003906	66	2e-10	60	50	Hypothetical protein gp39 (phage T1)
				NP_890025	53	1e-06	34	96	Phage-related conserved hypothetical protein (Bordetella bronchiseptica RB50)
rtp37	17455-20220	+	921	YP_003907	441	e-122	31	984	Putative tail tape-measure protein gp38 (phage T1)
				AAC19052	335	4e-90	32	841	gp16 (phage N15)
				BAB35066	284	8e-75	29	805	Tail length tape measure protein precursor (Escherichia coli O157:H7)
rtp38	20251-20601	+	116	YP_003908	115	2e-25	42	113	Putative minor tail protein gp37 (phage T1)
				NP_405668	57	1e-07	30	115	Hypothetical protein YPO2120 (Yersinia pestis CO92)
				AAC19053	54	1e-06	26	115	gp17 (phage N15)
rtp39	20641-21396	+	251	YP_003909	345	5e-94	68	243	Putative minor tail protein gp 36 (phage T1)
				AAC19054	200	3e-50	46	241	gp18 (phage N15)
rtp40	21464-21979	+	171	YP_003937	127	9e-29	40	168	Putative HNH endonuclease gp08 (phage T1)
				YP_003881	117	1e-25	43	161	Putative HNH endonuclease gp63 (phage T1)
				AAP58684	100	2e-20	40	147	17R (Xanthomonas oryzae phage Xp10)
rtp41	21960-22718	+	252	YP_003910	284	1e-75	53	244	Putative minor tail protein gp35 (phage T1)
				AAC19055	201	1e-50	44	236	gp19 (phage N15)
				YP_006598	199	4e-50	42	231	gp18 (phage phiKO2)
rtp42	22699-23271	+	190	YP_003911	191	7e-48	50	193	Putative tail assembly protein gp34 (phage T1)
				NP_718510	156	3e-37	47	185	Prophage LambdaSo, tail assembly protein (Shewanella oneidensis MR-1)
				AAC19056	142	5e-33	43	190	gp20 (phage N15)
rtp43	23313-26723	+	1136	YP_003912	1358	0.0	57	1,163	Putative tail fiber protein gp33 (phage T1)
				AAF31093	870	0.0	40	1,180	Tail fiber (phage HK97)
				AAF30375	867	0.0	40	1,186	gp24 (phage HK022)
rtp44	26752-27687	−	311	NP_405680	103	6e-21	26	310	Hypothetical protein YPO2132 (Yersinia pestis CO92)
				NP_892069	70	6e-11	25	346	Hypothetical protein (phage PY54)
rtp45	27687-27917	−	76	None
rtp46	28260-28658	+	132	None
rtp47	28662-29627	+	321	YP_003916	280	4e-74	44	348	Exodeoxyribonuclease VIII gp29 (phage T1)
				CAC33454	67	7e-10	24	313	Unnamed protein product (Legionella pneumophila)
rtp48	29701-30351	+	216	YP_003917	183	2e-45	43	216	Putative recombination protein gp28 (phage T1)
				YP_011247	92	7e-18	37	130	ERF family protein (Desulfovibrio vulgaris)
				YP_112530	82	7e-15	41	124	Essential recombination protein (phage 11b)
rtp49	30395-30826	+	143	YP_003918	122	1e-27	45	146	Single-stranded binding protein gp27 (phage T1)
				AAO53202	60	1e-08	46	69	Hypothetical protein (Dictyostelium discoideum)
rtp50	30856-33738	−	960	YP_003919	137	2e-30	42	166	Putative tail fiber gp26 (phage T1)
				CAD44528	68	1e-09	29	165	Endo-alpha-sialidase (E. coli phage K1F)
rtp51	33826-34749	−	307	YP_003921	251	1e-65	42	312	Putative DNA primase gp24 (phage T1)
				NP_458910	70	5e-11	27	252	Phage P4 DNA primase (Salmonella enterica subsp. enterica serovar lyphi strain CT18)
				AAG54598	70	9e-11	25	258	Alpha replication protein of prophage CP-933 (E. coli O157:H7 EDL933)
rtp52	34808-35281	−	157	YP_003922	135	3e-31	51	133	Hypothetical protein gp23 (phage T1)^b
rtp53	35383-37377	+	664	YP_003923	679	0.0	50	670	Putative ATP-dependent helicase gp22 (phage T1)
				NP_934217	155	4e-36	23	631	DNA or RNA helicase (Vibrio vulnificus YJ016)
rtp54	37379-37798	+	139	YP_003924	142	2e-33	53	138	Hypothetical protein gp21 (phage T1)
				AAW67538	59	2e-08	31	121	Hypothetical protein (Listonella pelagia phage phiHSIC)
				YP_006552	44	6e-04	30	118	PmgM (phage P1)
rtp55	37875-38075	+	66	None
rtp56	38075-38296	+	73	YP_003926	37	0.12	48	39	Hypothetical protein gp19 (phage T1)^b
rtp57	38293-38481	+	62	None
rtp58	38552-38677	+	41	YP_003927			37	43	Hypothetical protein gp18 (phage T1)^b
rtp59	38674-38922	+	82	YP_070306	65	3e-10	44	58	Hypothetical protein YPTB1780 (Yersinia pseudotuberculosis IP 32953)
rtp60	38925-39176	+	83	YP_003928	42	0.003	34	83	Hypothetical protein gp17 (phage T1)^b
rtp61	39259-40395	+	378	YP_003929	684	0.0	87	377	Hypothetical protein gp16 (phage T1)
				ZP_00303432	138	2e-31	26	376	Hypothetical protein (Novosphingobium aromaticivorans)
				YP_025077	47	9e-04	22	203	Hypothetical protein ORF50 (phage phi AT3)
rtp62	40469-40642	+	57	YP_003931	42	0.003	44	50	Hypothetical protein gp14 (phage T1)^b
rtp63	40773-40988	+	71	YP_003932	93	1e-18	59	71	Putative holin.gp13 (phage T1)^b
rtp64	40989-41474	+	161	YP_003933	130	1e-29	43	158	Endolysin gp12 (phage T1)
				NP_877484	120	1e-26	46	149	Putative phage lysozyme (phage phiKMV)
rtp65	41477-41839	+	120	YP_003934	83	2e-15	39	116	Hypothetical protein gp11 (phage T1)^b
rtp66	41854-42129	−	91	YP_003935	101	4e-21	50	90	Hypothetical protein gp10 (phage T1)^b
rtp67	42193-43776	−	527	YP_003936	579	e-164	56	521	Hypothetical protein gp09 (phage T1)
				NP_840326	92	4e-17	22	426	Hypothetical protein NE0232 (Nitrosomonas europaea ATCC 19718)
rtp68	43963-44202	−	79	None
rtp69	44199-44552	−	117	YP_003938	75	4e-13	40	120	Hypothetical protein gp07 (phage T1)^b
rtp70	44552-44713	−	53	None
rtp71	44713-44886	−	57	None
rtp72	44950-45114	−	54	None
rtp73	45111-45350	−	79	None
rtp74	45361-45537	−	58	None
rtp75	45546-45749	−	67	None

ID%, percent amino acid identity in region of BlastP alignment; overlap, length of BlastP alignment between query and target sequences.

The only homolog for the Rtp query sequence is found in phage T1.