TABLE 1.

Features of bacteriophage ΦCD119 ORFs, gene products, and their functional assignments

ORF	Start position	Stop position	No. of aaa	Predicted function	Accession no.	Significant match(es) (source, E value)b
1	201	692	163	Terminase	NP_815686.1	Terminase, large subunit, putative (prophage in Enterococcus faecalis V583, 1e−52)
2	778	1746	323	Terminase	NP_815686.1	Terminase, large subunit, putative (prophage in E. faecalis V583, 2e−61)
3	1897	2595	232
4	2610	3965	451	Portal protein	NP_814126.1	Portal protein (prophage in E. faecalis V583, 1e−23)
5	3978	5018	346	Head protein	NP_814127.1	Minor head protein (prophage in E. faecalis V583, 7e−14)
6	5086	5715	209		NP_607551.1	Hypothetical phage protein (Streptococcus pyogenes MGAS8232, 1e−08)
7	5737	5931	64
8	6323	6919	198	Scaffold protein	NP_814130.1	Scaffold protein (prophage in E. faecalis V583, 4e−08)
9	6943	7881	312	Capsid protein	ZP_00234864.1	Main capsid protein gp34 (prophage in L. monocytogenes F6854, 5e−15)
10	8143	8424	93
11	8497	8847	116
12	8910	9260	116
13	9271	9723	150
14	9724	10794	356		NP_782684.1	Phage-like element PBSX protein XkdK (C. tetani E88, 3e−72)
15	10809	11240	143		NP_782683.1	Phage-like element PBSX protein XkdM (C. tetani E88, 1e−25)
16	11272	11742	156		NP_389149.1	PBSX phage protein XkdN (B. subtilis 168, 3e−04)
17	11919	14753	944	Tape measure protein	NP_562046.1	Phage-related hypothetical protein (Clostridium perfringens strain 13, 3e−17)
18	14958	15578	207
19	16507	16752	81
20	16770	17156	128		G69732	PBSX prophage ORF XkdP (B. subtilis, 9e−09)
21	17135	17443	102
22	17464	17706	80
23	17965	18651	228		NP_782678.1	Phage-like element PBSX protein XkdQ (C. tetani E88, 7e−16)
24	18695	19318	207		NP_780938.1	Putative cell wall-associated hydrolase (C. tetani E88, 2e−26)
25	19501	19827	108
26	19827	20195	122		NP_782677.1	Phage-like element PBSX protein XkdS (C. tetani E88, 5e−16)
27	20249	21301	351		NP_782676.1	Phage-like element PBSX protein XkdT (C. tetani E88, 7e−38)
28	21926	22324	132	Tail fiber protein	NP_900088.1	Probable tail fiber-related protein (Chromobacterium violaceum ATCC 12472, 1e−24)
29	22383	22706	108
30	22724	23995	423
31	23995	24177	60
32	24213	24443	76
33	24463	24720	85	Holin
34	24720	25535	272	Lysin	ZP_00162412.2	N-acetylmuramoyl-l-alanine amidase (Anabaena variabilis ATCC 29413, 5e−23)
35	25552	25848	99
36	26361	26954	198
37	26972	27403	143
38	27405	27731	108
39	27703	28110	135
40	29563	29844	93
41	29884	30156	90	Transcriptional regulator	CAA63560.1 cdu1	(C. difficile, 3e−06)
42	31674	30568	368	Integrase	ZP_00510128.1	Phage integrase (Clostridium thermocellum ATCC 27405, 4e−40)
43	32134	31733	133
44	33177	32782	131	Repressor	YP_175240.1	Transcriptional repressor of PBSX phage (Bacillus clausii KSM-K16, 3e−10)
45	33912	33694	73	Cro/CI like	NP_689001.1	Transcriptional regulator, Cro/CI family (Streptococcus agalactiae 2603V/R, 4e−09)
46	34261	35094	278		ZP_00063048.2	COG3561: phage anti-repressor protein (Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293, 5e−36)
47	35138	35332	65
48	35955	36311	118
49	37274	37516	80
50	37526	38134	202
51	38135	39025	296	DNA replication	NP_833429.1	Phage replication protein (Bacillus cereus ATCC 14579, 2e−16)
52	39275	39682	135	DNA replication	NP_348542.1	Phage-related SSB-like protein (Clostridium acetobutylicum ATCC 824, 1e−16)
53	39757	40011	84
54	40058	40348	96
55	40345	40710	121
56	40775	41095	106
57	41355	41528	57
58	41528	41863	111
59	41949	42731	260	DNA methylase	ZP_00314461.1	Site-specific DNA methylase (C. thermocellum ATCC 27405, 6e−70)
60	42712	43044	110	DNA methylase	ZP_00314461.1	Site-specific DNA methylase (C. thermocellum ATCC 27405, 2e−25)
61	43343	43999	218
62	44004	44339	111
63	44370	45074	234	Recombination	YP_215329.1	Lambda Nin-like protein (Salmonella enterica subsp. enterica serovar Choleraesuis strain SC-B67, 4e−04)
64	45071	45244	57
65	45237	45608	124
66	45611	46078	155
67	46157	46342	61
68	46356	46595	79
69	46724	47530	268	Methyltransferase	BAA11514.1	Methyltransferase (Curtobacterium albidum, 1e−53)
70	47544	47897	117	Holliday junction resolvase	ZP_00303454.1	Holliday junction resolvase (Novosphingobium aromaticivorans DSM 12444, 4e−16)
71	47986	48693	235	Antirepressor	ZP_00089317.1	Phage antirepressor protein (Azotobacter vinelandii, 1e−21)
72	48787	49275	162
73	50002	50196	64
74	50196	50804	203
75	50826	51071	81
76	51051	51248	65
77	51468	52412	314
78	52720	53019	99
79	53085	53315	76

^aaa, amino acids.

^bPredicted by computer analysis.