TABLE 5.
Identities between ORFs of the novel SCCmec II variant element of Irish MRSA isolate AR13.1/3330.2 and the conventional SCCmec IVb and II elements
| SCCmec element and ORF | Locationa | Homology to ORFs of SCCmec IVbb
|
Homology to ORFs of SCCmec IIb
|
||||
|---|---|---|---|---|---|---|---|
| ORF | % Homologyc | Gene product | ORF | % Homologyc | Gene product | ||
| IIE01 | 210-1145 (complement) | CM001 | 83.7 | Hypothetical protein | — | — | — |
| IIE02 | 1123-1893 (complement) | CM002 | 100 | Hypothetical protein | — | — | — |
| IIE03 | 2010-3440 | M001 | 99.6 | Hypothetical protein | — | — | — |
| IIE04 | 3560-5350 | M002 | 99.7 | Conserved hypothetical protein | N031 | 80.3 | Conserved hypothetical protein |
| IIE05 (ccrA2) | 5584-6933 | M004 | 99.1 | Cassette chromosome recombi- nase A2 | N034 | 96.7 | Cassette chromosome recombi- nase A2 |
| IIE06 (ccrB2) | 6955-8583 | M005 | 97.8 | Cassette chromosome recombi- nase B2 | N037 | 98 | Cassette chromosome recombi- nase B2 |
| IIE07 | 9101-9451 | M006 | 88.9 | Conserved hypothetical protein | N041 | 100 | Conserved hypothetical protein |
| IIE08 | 9538-9849 | M007 | 89.4 | Conserved hypothetical protein | N042 | 100 | Conserved hypothetical protein |
| IIE09 | 9867-10373 | M008 | 91.7 | Conserved hypothetical protein | N043 | 99.4 | Conserved hypothetical protein |
| IIE10 | 10394-10711 | —d | — | — | N044 | 100 | Pseudogene |
| IIE11 (tnpA) | 10830-11915 | — | — | — | N045 | 100 | Transposase A |
| IIE12 (tnpB) | 11912-13804 | — | — | — | N046 | 100 | Transposase B |
| IIE13 (tnpC) | 13811-14188 | — | — | — | N047 | 100 | Transposase C |
| IIE14 (spc) | 14339-15121 | — | — | — | N048 | 100 | O-Nucleotidyltransferase |
| IIE15 (ermA) | 15247-15978 (complement) | — | — | — | CN026 | 100 | rRNA adenine N-6-methyltrans- ferase |
| IIE16 (tnp IS1182) | 16499-18103 | — | — | — | — | — | — |
| IIE17 (ΔmecI) | 18207-18459 (complement) | — | — | — | CN036 | 67.7 | Methicillin resistance protein MecI |
| IIE18 (mecR1) | 18459-20216 (complement) | CM003 | 55.6 | Truncated signal transducer protein MecR1 | CN037 | 100 | Signal transducer protein MecRI |
| IIE19 (mecA) | 20316-22322 | M010 | 100 | Penicillin binding protein 2a | N058 | 100 | Penicillin binding protein 2a |
| IIE20 | 22368-22796 (complement) | CM004 | 100 | Conserved hypothetical protein | CN038 | 100 | Conserved hypothetical protein |
| IIE21 (ugpQ) | 22893-23636 | CM006 | 100 | Glycerophosphoryldiester phosphodiesterase | N039 | 100 | Glycerophosphoryldiester phos- phodiesterase |
| IIE22 (tnp IS431mec) | 23901-24575 | M011 | 100 | Transposase for IS431mec | N062 | 100 | Transposase for IS431mec |
| IIE23 | 24607-24846 (complement) | CM007 | 100 | Conserved hypothetical protein | CN049 | 100 | Conserved hypothetical protein |
| IIE24 | 25261-26556 (complement) | CM008 | 40.7 | Truncated conserved hypo- thetical protein | CN050 | 100 | Truncated conserved hypothe- tical protein |
a
The nucleotide positions were determined based on the sequences for SCCmec IIE deposited in the GenBank database under accession number AJ8101208.
b
ORFs and gene products from SCCmec II and SCCmec IVb, based on nucleotide sequences in the GenBank database, accession number D86934 and AB063173, respectively (17, 25).
c
Based on amino acid identity.
d
—, no significant homology.