TABLE 1.
Gene productsa encoded by genes flanking IS1630 in M. fermentans
| Gene product | Sizeb | Closest homolog | % Identity (length of the homologous regionc) | P | Comment | M. genitalium homologd |
|---|---|---|---|---|---|---|
| InfB | >212 | InfB, Bacillus subtilis | 38 (176) | 2 × 10−30 | Translation initiation factor 2 | MG142 |
| Apt | 171 | Apt, Staphylococcus aureus | 51 (130) | 4 × 10−35 | Adenine phosporibosyltransferase | MG276 |
| DnaI | 297 | DnaI, B. subtilis | 26 (174) | 1 × 10−10 | Primosomal protein (DNA helicase) | ND |
| OrfC1 | 112 | ND | ND | |||
| OrfC2 | >38 | ND | Putative prolipoprotein signal sequence | ND | ||
| Leu-tRNA | 87 | Leu-tRNA, Helicobacter pylori | 93 (46) | 3 × 10−10 | UAA anticodon | tRNA-Leu1 |
| Lys-tRNA | 76 | Lys-tRNA, Mus musculus | 88 (71) | 3 × 10−13 | UUU anticodon | tRNA-Lys1 |
| OrfD1 | 248 | EpiF, S. aureus | 35 (199) | 5 × 10−23 | ATP-binding protein (ATP-binding cassette transporter) | MG179 |
| OrfD2 | 232 | ND | ND | |||
| OrfE1 | >373 | ORF, Mycobacterium tuberculosis | 26 (210) | 9 × 10−10 | Homolog is encoded by strand opposite that of assigned ORF Rv3294 | ND |
| OrfE2 | 48 | ND | Small Cys-rich protein (16 of 48 residues are Cys) | ND | ||
| MutM | 273 | Fpg, M. pneumoniae | 35 (275) | 1 × 10−43 | Foramidopyrimidine DNA glycosylase (DNA repair) | MG262.1 |
| OrfF1 | >230 | ND | ND | |||
| OrfG1 | 172 | ND | ND | |||
| OrfG2 | >151 | DNA polymerase I, B. subtilis | 43 (110) | 2 × 10−16 | Homology is in the exonuclease domain | MG262 |
| OrfHI | >322 | ND | ND | |||
| OrfH2 | >150 | ND | ND |
a
The relative position and orientation of each gene are indicated in Fig. 4.
b
Given in amino acid residues, except for tRNA products (nucleotides).
c
Given in amino acid residues, except for tRNAs (nucleotides).
d
From the M. genitalium database; designations are from a system described previously (8). ND, no homolog detected in databases (P, < 1 × 10−5).