TABLE 2.
Predicted gene products of pRA2a
| Predicted product | Coding position (start–stop) | Predicted molecular mass (kDa) | Predicted pI | Predicted function and product description (GenBank accession no. of closest relative) |
|---|---|---|---|---|
| Replication and maintenance | ||||
| RepA | 8075–7245 | 30.3 | 10.77 | Plasmid replication protein, no protein relatives |
| RepB | 8481–8239 | 8.8 | 10.16 | Hypothetical plasmid replication protein |
| KorA | 11844–11419 | 15.4 | 10.56 | Plasmid maintenance, KorA homolog (P03052) |
| KfrA | 6327–5302 | 37.1 | 4.92 | Plasmid maintenance, KfrA homolog (JQ0559) |
| Stability | ||||
| ResA | 22800–22186 | 22.9 | 9.89 | Plasmid multimer resolution, resolvase (AF015307) |
| Pac25I.M | 22171–21269 | 33.6 | 7.22 | Pac25I methyltransferase (AF051091) |
| Pac25I.R | 21272–20271 | 36.8 | 5.81 | Pac25I restriction endonuclease (AF051091) |
| ParA | 20117–19479 | 22.6 | 4.98 | Plasmid partition, ParA homolog (AAD19678) |
| ParB | 19457–19236 | 7.9 | 10.17 | Hypothetical plasmid stability protein |
| ParC | 19202–18816 | 14.4 | 9.81 | Hypothetical plasmid stability protein |
| Mobilization | ||||
| MobA | 27275–24711 | 98.5 | 9.60 | Plasmid relaxase/nikase, TraI homolog (S23001) |
| MobB | 27592–27278 | 11.5 | 8.83 | Plasmid relaxase/nikase, TraJ homolog (P17909) |
| MobC | 27987–28337 | 12.6 | 10.13 | Plasmid relaxase/nikase, TraK homolog (P17910) |
| MobD | 28343–30130 | 66.2 | 5.63 | Hypothetical plasmid mobilization protein |
| MobE | 30143–30421 | 10.4 | 9.30 | Hypothetical plasmid mobilization protein |
| Mobile elements | ||||
| TnpA | 14203–17196 | 111.4 | 7.93 | Tn5563 transposase (CAA97955) |
| TnpR | 13348–12419 | 34.5 | 9.35 | Tn5563 resolvase (CAA97956) |
| MerR | 18142–18540 | 14.5 | 7.80 | Tn5563 MerR homolog, regulatory (S51720) |
| MerT | 18073–17717 | 12.5 | 9.52 | Tn5563 heavy-metal transport protein (CAA70228) |
| MerP | 17704–17429 | 9.7 | 8.18 | Tn5563 periplasmic transport protein (P04129) |
| TnpA2 | 31426–290 | 62.3 | 10.04 | IS1633 transposase (U25434) |
| Miscellaneous gene products | ||||
| OmpA | 1509–2171 | 22.9 | 9.07 | Outer membrane protein, OmpA homolog (P37665) |
| Orf 126 | 432–812 | 13.9 | 4.96 | Hypothetical protein, no relatives |
| Orf 96 | 2725–3015 | 10.4 | 4.84 | Conserved hypothetical protein (P44191) |
| Orf 99 | 2429–2728 | 11.2 | 10.28 | Conserved hypothetical protein (P44190) |
| Orf 127 | 3476–3093 | 13.9 | 6.82 | Hypothetical protein, no relatives |
| Orf 522 | 5041–3473 | 57.4 | 6.61 | Conserved hypothetical protein (S45085) |
| Orf 291 | 24149–23274 | 32.7 | 5.64 | Hypothetical protein, no relatives |
| Orf 111 | 24481–24146 | 13.0 | 4.64 | Hypothetical protein, no relatives |
Predicted gene products of pRA2 are listed in groups based on their likely role. Proteins have been named according to their closest relative, probable function, or length in amino acids. Coding region positions are numbered with respect to the unique BglII restriction site (taken as coordinate 1) and from the first base of the start codon to the last base of the stop codon. Ascending coding positions indicate that the gene is located on the positive strand while descending coding positions indicate the gene is found on the negative strand. The DNASIS Program (Hitachi Software) was used to make predictions of coding regions, molecular weights, and isoelectric points. The GenBank BLAST algorithm (1) was used to conduct homology searches.