TABLE 3.
Characteristics of the genes and their products located in the traRacc and traRnoc regions of pAtK84b
| Locus | Gene | Coordinates (bp)a | Translation product
|
Closest homologs in the data bases
|
|||||
|---|---|---|---|---|---|---|---|---|---|
| Size (aa) | Mass (kDa) | Protein | Source | % Relatednessb | Accession no. | Function | |||
| traRacc | orfB | 292-1935 | 547 | 58.9 | OrfB | pTiC58 | 77/85 | AF010180 | Unknown |
| orf1 | 1937-3161 | 394 | 44.2 | AGRL1546p | C58 linear chromosome | 52/64 | AE008275 | Putative aldose-1-epimerase | |
| YihR | E. coli K-12 | 25/43 | AE000463 | Putative aldose-1-epimerase | |||||
| spl | 3171-4637 | 488 | 53.9 | SucP | pTi2608 | 94/95 | P33910 | Related to sucrose phoshorylase | |
| SplA | pTiC58 | 79/87 | T03426 | Related to sucrose phoshorylase | |||||
| traRacc | 4758-5465 | 234 | 26.5 | TraRnoc | pAtK84b | 98/98 | AF065244 | Quorum-sensing transcriptional activator | |
| TraRvitis | pTi2608 | 97/97 | S37463 | Putative quorum-sensing transcriptional activator | |||||
| TraRC58 | pTiC58 | 89/92 | AF010180 | Quorum-sensing transcriptional activator | |||||
| mcpAc | 5828-5927 | NAf | NA | McpA | pTiC58 | 87/87 | AF010180 | Methyl-accepting chemotaxis protein | |
| traRnoc | ocdd | 1-925 | >308 | >33.6 | OCDase | pTiC58 | 97/98 | P09773 | Ornithine cyclodeaminase |
| orf1 | 945-2075 | 376 | 41.5 | None | NA | NA | NA | Hypothetical protein | |
| orf2 | 2005-2403 | 133 | 14.6 | None | NA | NA | NA | Hypothetical protein | |
| traRnoc | 2542-3246 | 234 | 26.5 | TraRacc | pAtK84b | 98/98 | AF065245 | Quorum-sensing transcriptional activator | |
| TraRvitis | pTi2608 | 96/97 | S37463 | Quorum-sensing transcriptional activator | |||||
| TraRC58 | pTiC58 | 89/82 | AF010180 | Quorum-sensing transcriptional activator | |||||
| sml | 4303-3281 | 340 | 31.2 | SmoC | Xanthomonas spp. | 30/48 | AF018073 | Repressor | |
| msle | 4860-4308 | >183 | >19.6 | Mas1" | pRi8196 | 32/50 | P50201 | Opine oxidoreductase | |
a
Numbers represent the first nucleotide of the translational start codon and the last nucleotide of the last coding triplet unless otherwise noted.
b
Numbers represent percent amino acid identities/percent amino acid similarities, including conserved substitutions.
c
A 90-bp segment of nucleotide sequence.
d
Sequence represents the last 925 bp of the ocd gene.
e
Sequence represents the first 579 bp of the msl gene.
f
NA, not applicable.