TABLE 2.
ORFs in and around φ2958PVL and their similarities to φSa2mw and φ108PVLa
| ORF and special structure | Start (bp) | End (bp) | Size (bp) | aaa | Gene | Function | φSa2mw
|
φ108PVL
|
||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| % Identity to φSa2mw genome | Corresponding ORF (size in bp) | % aa identity | % Identity to φ108PVL genome | Corresponding ORF (size in bp) | % aa identity | |||||||
| (JP001)b | 295 | 936 | 642 | 214 | Hypothetical protein | |||||||
| attB1 | 842 | 866 | 25 | Attachment site on chromosome | ||||||||
| Core | 867 | 895 | 29 | Core sequence | ||||||||
| attP-left | 896 | 920 | 25 | Attachment site on phage | ||||||||
| JP002 | 2184 | 979 | 1,206 | 401 | int | Phage integrate | 98.7 | Integrase (1,206) | 99.8 | 98.6 | Integrase (1,206) | 99.8 |
| JP003 | 2310 | 2924 | 615 | 204 | Na/K ATPase | 47.4 | Putative membrane protein MW1441 (624) | 26.7 | 52.1 | |||
| JP004 | 3285 | 3103 | 183 | 60 | Hypothetical protein | 52.2 | 52.2 | |||||
| JP005 | 4301 | 3381 | 921 | 306 | Hypothetical protein | 45.9 | 45 | |||||
| JP006 | 4931 | 4317 | 615 | 204 | rep | Putative transcriptional repressor | 45.2 | Repressor (324) | 34.3 | 49.1 | cI-like repressor (717) | 24 |
| JP007 | 5103 | 5330 | 228 | 75 | Hypothetical protein | 54.4 | 54.7 | Putative cro-like repressor (243) | 23.1 | |||
| JP008 | 5356 | 5520 | 165 | 54 | ant | Putative antirepressor | 52.1 | 50.3 | Putative antirepressor (753) | 31.4 | ||
| JP009 | 5927 | 6145 | 219 | 72 | Hypothetical protein | 51.8 | 52 | |||||
| JP010 | 6195 | 6440 | 246 | 81 | Hypothetical protein | 100 | MW1434 (246) | 100 | 47.9 | |||
| JP011 | 6774 | 6409 | 366 | 121 | Hypothetical protein | 100 | MW1433 (366) | 100 | 46.1 | |||
| JP012 | 6829 | 7044 | 216 | 71 | Hypothetical protein | 77.3 | MW1432 (216) | 66.2 | 55.6 | |||
| JP013 | 7069 | 7332 | 264 | 87 | Hypothetical protein | 82.6 | MW1431 (264) | 78.8 | 99.6 | Putative DNA-binding protein (264) | 98.9 | |
| JP014 | 7347 | 7505 | 159 | 52 | Hypothetical protein | 93.7 | MW1430 (162) | 96.2 | 98.7 | |||
| JP015 | 7584 | 7907 | 324 | 107 | Hypothetical protein | 92.9 | MW1429 (324) | 91.6 | 51 | |||
| JP016 | 7922 | 8284 | 363 | 120 | Hypothetical protein | 97.8 | MW1428 (363) | 97.5 | 48.9 | |||
| JP017 | 8281 | 9447 | 1,167 | 388 | Hypothetical protein | 97.4 | MW1427 (1,167) | 97.9 | 46.5 | |||
| JP018 | 9473 | 10030 | 558 | 185 | Hypothetical protein | 98.7 | MW1426 (558) | 99.5 | 49.7 | |||
| JP019 | 10098 | 12050 | 1,953 | 650 | pol | DNA polymerase | 99.8 | DNA polymerase (1,962) | 99.7 | 47.5 | ||
| JP020 | 12063 | 12248 | 186 | 61 | Hypothetical protein | 100 | MW1424 (186) | 100 | 69.9 | |||
| JP021 | 12245 | 12649 | 405 | 134 | Putative DNA-binding protein | 100 | MW1423 (402) | 100 | 57 | |||
| JP022 | 12649 | 12906 | 258 | 85 | Hypothetical protein | 97.7 | MW1422 (258) | 97.6 | 52.8 | |||
| JP023 | 13118 | 13366 | 249 | 82 | Hypothetical protein | 92.4 | MW1420 (243) | 93.8 | 91.6 | P028 (249) | 89 | |
| JP024 | 13407 | 13661 | 255 | 84 | Hypothetical protein | 89.8 | MW1419 (255) | 86.6 | 96.8 | P030 (372) | 98.8 | |
| JP025 | 13811 | 14347 | 537 | 178 | Hypothetical protein | 95.2 | MW1415 (534) | 96.6 | 49.1 | |||
| JP026 | 14645 | 14881 | 237 | 78 | Hypothetical protein | 54 | 100 | P032 (237) | 100 | |||
| JP027 | 14865 | 15026 | 162 | 53 | Hypothetical protein | 91.7 | MW1411 (156) | 86.3 | 92.1 | |||
| JP028 | 15094 | 15294 | 201 | 66 | Hypothetical protein | 98.5 | MW1410 (201) | 97 | 61.6 | |||
| JP029 | 15347 | 17794 | 2,448 | 815 | virE | Virulencc-associated protein E | 98.9 | Virulence-associated protein E (2,448) | 99.6 | 46.7 | ||
| JP030 | 18135 | 18425 | 291 | 96 | Hypothetical protein | 95.2 | MW1406 (198) | 98.5 | 50 | |||
| JP031 | 18502 | 19773 | 1,272 | 423 | Phage helicase | 99.4 | Phage helicase (1,359) | 100 | 47.8 | |||
| JP032 | 19786 | 20223 | 438 | 145 | Phage regulatory protein | 89.7 | MW1404 (438) | 93.8 | 51.4 | |||
| JP033 | 20380 | 20694 | 315 | 105 | Hypothetical protein | 97.5 | MW1403 (315) | 95.2 | 51.5 | |||
| JP034 | 20805 | 21128 | 324 | 107 | terS | Terminase small subunit | 97.5 | Terminase small subunit (306) | 100 | 49.4 | Terminase small subunit (468) | 28.6 |
| JP035 | 21448 | 22809 | 1,362 | 453 | terL | Terminase large subunit | 91.6 | Terminase large subunit (1,692) | 96.5 | 46.1 | Terminase large subunit (1,695) | 24.8 |
| JP036 | 23006 | 24052 | 1,047 | 348 | por | Portal protein | 98.9 | Portal protein (1,239) | 98.9 | 48.7 | Portal protein (1,326) | 21.9 |
| JP037 | 24036 | 24809 | 774 | 257 | pro | Prohead protease | 99.7 | Protease (774) | 100 | 46.7 | Prohead protease (585) | 24.6 |
| JP038 | 24776 | 25984 | 1,209 | 402 | Putative capsid protein | 99.9 | Capsid (1,164) | 100 | 49.3 | Capsid (1,248) | 19.2 | |
| JP039 | 26053 | 26331 | 279 | 92 | Hypothetical protein | 100 | MW1397 (279) | 100 | 49.4 | |||
| JP040 | 26343 | 26675 | 333 | 110 | Hypothetical protein | 96.4 | MW1396 (333) | 97.3 | 49.5 | |||
| JP041 | 26672 | 27073 | 402 | 133 | Hypothetical protein | 99.5 | MW1395 (402) | 100 | 48.5 | |||
| JP042 | 27074 | 27469 | 396 | 131 | Hypothetical protein | 100 | MW1394 (396) | 100 | 50.4 | |||
| JP043 | 27504 | 28145 | 642 | 213 | Major tail protein | 99.8 | Major tail protein (642) | 100 | 47.8 | |||
| JP044 | 28237 | 28692 | 456 | 151 | Major tail protein | 99.8 | Major tail protein (456) | 99.3 | 49.3 | |||
| JP045 | 28750 | 29100 | 351 | 116 | Hypothetical protein | 99.7 | MW1391 (342) | 100 | 50.4 | |||
| JP046 | 29142 | 29300 | 159 | 52 | Hypothetical protein | 100 | No corresponding gene | 56.8 | ||||
| JP047 | 29314 | 35514 | 6,201 | 2066 | mtp | Tail length tape measure protein | 98.1 | Tail length tape measure protein (6,201) | 98.9 | 46.4 | Tail length tape measure protein (3,333) | 25.3 |
| JP048 | 35514 | 36338 | 825 | 274 | Hypothetical protein | 100 | MW1389 (825) | 100 | 48.5 | |||
| JP049 | 36347 | 37930 | 1,584 | 527 | Hypothetical protein | 100 | MW1388 (1,584) | 100 | 45.7 | |||
| JP050 | 37930 | 38220 | 291 | 96 | Hypothetical protein | 100 | MW1387 (291) | 100 | 49.5 | |||
| JP051 | 38236 | 40146 | 1,911 | 636 | Hypothetical protein | 99.6 | MW1386 (1,911) | 99.8 | 45.4 | |||
| JP052 | 40113 | 41612 | 1,500 | 499 | Hypothetical protein | 99.7 | MW1385 (1,467) | 99.8 | 47.5 | |||
| JP053 | 41612 | 42001 | 390 | 129 | Hypothetical protein | 100 | MW1384 (390) | 100 | 48.1 | |||
| JP054 | 41994 | 42158 | 165 | 54 | Hypothetical protein | 100 | MW1383 (165) | 100 | 54 | |||
| JP055 | 42204 | 42503 | 300 | 99 | Hypothetical protein | 100 | MW1382 (300) | 100 | 51.1 | |||
| JP056 | 42639 | 42941 | 303 | 100 | hol | Holin | 100 | Holin (303) | 100 | 100 | Holin (303) | 100 |
| JP057 | 42952 | 44406 | 1,455 | 484 | aml | Amidase (peptidoglycan hydrolase) | 98.3 | Amidase (1,455) | 99.2 | 98.3 | Amidase (1,455) | 99.2 |
| JP058 | 44556 | 44687 | 132 | 43 | Hypothetical protein | 98.5 | No corresponding gene | 98.5 | ||||
| JP059 | 44795 | 45733 | 939 | 315 | lukS-PV | LukS-PV | 99.8 | LukS-PV (939) | 99.7 | 100 | LukS-PV (939) | 100 |
| JP060 | 45735 | 46712 | 978 | 325 | lukF-PV | LukF-PV | 99.9 | LukF-PV (978) | 100 | 99.9 | LukF-PV (978) | 100 |
| attP-right | 46917 | 46941 | 25 | Attachment site on phage | ||||||||
| Core | 46942 | 46970 | 29 | Core sequence | ||||||||
| attB2 | 46971 | 46995 | 25 | Attachment site on chromosome | ||||||||
a
aa, amino acid.
b
ORF in parentheses was located outside of the φ2958PVL. Two sets of core sequences and attachment site sequences were also identified flanking the φ2958PVL.