TABLE 2.
ORFs in and around SCCmecC10682
| Genetic region | ORF or key structural componenta | Position (bp) | Size (bp) | Protein size (aa)b | % Identity | Homolog(s) (strain[s]) | Informationc |
|---|---|---|---|---|---|---|---|
| Chromosome | orfX | 1-151 | 151 | NA | 100 | SARCOL0025 (COL) | Conserved hypothetical protein (partial cds) |
| Repeat region | DRSCC-R | 137-148 | 12 | NA | Direct repeat at right extremity of SCCmec | ||
| DyadR-R | 240-254 | 15 | NA | 100; 100 | (COL); (RP62A) | Dyad repeat at right extremity of SCCmec | |
| J3 | CA001 | 329-1624 | 1,296 | 431 | 100 | SERP2528 (RP62A) | Conserved hypothetical protein |
| CA002 | 2039-2278 | 240 | 79 | 100 | SERP2527 (RP62A) | Conserved hypothetical protein | |
| mec gene complex | IR-R* | 2250-2266 | 17 | NA | 100 | (RP62A) | Right inverted complementary repeat of IS431 element |
| tnp* | 2310-2984 | 675 | 224 | 100 | SERP2526 (RP62A) | Transposase for IS431 element | |
| IR-L* | 3025-3041 | 17 | NA | 100 | (RP62A) | Left inverted complementary repeat of IS431 element | |
| CA004 | 3242-3409 | 168 | 55 | 100 | SERP2525 (RP62A) | Truncated probable HMG-CoA synthase | |
| CA005 | 3507-3737 | 231 | 76 | 100 | SERP2524 (RP62A) | Conserved hypothetical protein | |
| CA006 | 4246-4989 | 744 | 247 | 100 | SERP2523 (RP62A) | Glycerophosphoryldiester phosphodiesterase homologue | |
| CA007 | 5086-5514 | 429 | 142 | 100 | SERP2522 (RP62A) | MaoC domain protein dehydratase | |
| mecA | 5560-7566 | 2,007 | 668 | 100 | SERP2521 (RP62A) | Penicillin binding protein 2′ | |
| mecR1 | 7666-9423 | 1,758 | 585 | 100 | SERP2520 (RP62A) | Methicillin resistance protein | |
| mecI | 9423-9794 | 372 | 123 | 100 | SERP2519 (RP62A) | Methicillin resistance regulatory protein | |
| J2 | CA011 | 9895-10107 | 213 | 70 | 100 | SERP2518 (RP62A) | Conserved hypothetical protein |
| xylR | 10302-11411 | 1,110 | 369 | 100 | SERP2517 (RP62A) | Xylose repressor homologue | |
| CA013 | 11525-11785 | 261 | 86 | 100 | SERP2516 (RP62A) | Conserved hypothetical protein | |
| CA014 | 11921-12781 | 861 | 286 | 99 | SERP2516 (RP62A) | Conserved hypothetical protein | |
| CA015 | 12892-13956 | 1,065 | 354 | 100 | SERP2515 (RP62A) | Rhodanese-like domain protein | |
| CA016 | 14092-14352 | 261 | 86 | 100 | SERP2514 (RP62A) | Conserved hypothetical protein | |
| CA017 | 14352-14996 | 645 | 214 | 100 | SERP2513 (RP62A) | Conserved hypothetical protein | |
| CA018** | 15335-15946 | 612 | 203 | 100 | SERP2512 (RP62A) | Methyltransferase type 12 | |
| CA019** | 16356-16556 | 201 | 66 | 100 | SERP2511 (RP62A) | Peptide L | |
| ermA** | 16531-17262 | 732 | 243 | 100 | SERP2510 (RP62A) | rRNA adenine N-6-methyltransferase | |
| aad(9)** | 17388-18170 | 783 | 260 | 100 | SERP2509 (RP62A) | Streptomycin 3′-adenyltransferase | |
| tnpC** | 18321-18698 | 378 | 125 | 100 | SERP2508 (RP62A) | Transposase C | |
| tnpB** | 18705-20597 | 1893 | 630 | 100 | SERP2507 (RP62A) | Transposase B | |
| tnpA** | 20594-21679 | 1,086 | 361 | 100 | SERP2506 (RP62A) | Transposase A | |
| CA025 | 21798-22115 | 318 | 105 | 100 | SERP2505 (RP62A) | Truncated radC DNA repair protein | |
| CA026 | 22136-22642 | 507 | 168 | 96; 87 | SERP2504 (RP62A); SE0052 (ATCC 12228) | Hypothetical protein | |
| CA027 | 22658-22969 | 312 | 103 | 96; 95 | SERP2503 (RP62A); SE0053 (ATCC 12228) | Hypothetical protein | |
| CA028 | 22971-23063 | 93 | 30 | 97; 84 | SERP2502 (RP62A); SE0054 (ATCC 12228) | Conserved hypothetical protein | |
| CA029 | 23056-23406 | 351 | 116 | 90; 98 | SERP2501 (RP62A); SE0055 (ATCC 12228) | Conserved hypothetical protein | |
| ccr gene complex | ccrB4 | 23907-25535 | 1,629 | 542 | 99 | SE0056 (ATCC 12228) | Cassette chromosome recombinase B4 |
| ccrA4 | 25532-26893 | 1,362 | 453 | 100 | SE0057 (ATCC 12228) | Cassette chromosome recombinase A4 | |
| J1 | CA032 | 27080-27661 | 582 | 193 | 100 | SE0058 (ATCC 12228) | Putative membrane protein |
| ccrA | 27937-28056 | 120 | 39 | 100 | SE0059 (ATCC 12228) | Cassette chromosome recombinase A | |
| CA034 | 28168-28527 | 360 | 119 | 100 | SE0060 (ATCC 12228) | Hypothetical protein | |
| CA035 | 29163-29261 | 99 | 32 | 100 | SE0061 (ATCC 12228) | Hypothetical protein | |
| copA | 29381-31315 | 1,935 | 644 | 99 | SE0062 (ATCC 12228) | Copper-transporting ATPase CopA | |
| Repeat region | DyadR-L | 32040-32054 | 15 | NA | Dyad repeat at left extremity of SCCmec | ||
| DRSCC-L | 32310-32321 | 12 | NA | 100; 93 | (HDE288); (COL) | Direct repeat at left extremity of SCCmec | |
| Chromosome | CA037 | 32624-32716 | 93 | 30 | 100 | SACOL0057 (COL) | Conserved hypothetical protein |
| CA038 | 32863-33371 | 509 | NA | 100 | SACOL0058 (COL) | Conserved hypothetical protein (partial cds) |
a
*, IS431; **, Tn554.
b
NA, not applicable.
c
cds, coding region; HMG-CoA, 3-hydroxy-3-methylglutaryl-coenzyme A.