Rv1457c Family assigned · medium auto-curated
H37Rv Rv1457c · MTBC0 mtbc0_001559 ·
261 aa · 1652289–1653074 (-) ·
RefSeq NP_215973.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | antibiotic ABC transporter permease |
|---|---|
| MTBC0 PGAP re-annotation | ABC transporter permease |
| Revised (this work) | ABC transporter permease. Pfam: ABC2_membrane (PF01061.30), ABC2_membrane_3 (PF12698.14). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O86349
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable unidentified antibiotic-transport integral membrane ABC transporter |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
V Defense mechanisms
|
|---|---|
| eggNOG description | ABC transporter |
| Orthologous group | COG0842 |
| KEGG orthology |
K01992
|
| KEGG modules |
M00254
|
Orthology-based transfer (eggNOG 5.0.2, diamond). EC/KO/GO/CAZy are computed annotations, not manual curation; cross-check against the primary literature before treating a specific reaction as established.
Conservation & selection (intra-MTBC, 145 209 strains)
| pN/pS | 0.387 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 1 missense, 0 nonsense, 0 frameshift |
pN/pS from segregating SNPs (singletons removed) normalised by possible sites. Low pN/pS = purifying selection (a strong signal that a "hypothetical" is a real, constrained gene). A high pN/pS is ambiguous: relaxed constraint or positive selection (drug resistance, antigenic variation) inflate it; e.g. rpoB/katG/pncA score high here for resistance, not loss of function. A clonal disruption (one allele over a clade) suggests lineage pseudogenisation; a convergent one (many independent alleles) is typical of resistance loss-of-function.
Domains (Pfam, hmmscan --cut_ga)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
ABC2_membrane | PF01061.30 | 1.0e-11 | 34–231 | ABC-2 type transporter |
ABC2_membrane_3 | PF12698.14 | 1.2e-10 | 74–254 | ABC-2 family transporter protein |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1458c (antibiotic ABC transporter ATP-binding protein), high confidence from genomic context alone (score 997 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1458c |
antibiotic ABC transporter ATP-binding protein | 999 | 997 ctx | neighborhood:882 cooccurence:570 coexpression:405 database:900 textmining:814 |
Rv1456c |
antibiotic ABC transporter permease | 998 | 989 ctx | neighborhood:767 cooccurence:568 database:900 textmining:870 |
Rv1459c mptB |
alpha-(1->6)-mannopyranosyltransferase | 977 | 832 ctx | neighborhood:772 textmining:870 |
Rv1460 sufR |
transcriptional regulator | 779 | 779 ctx | neighborhood:712 |
Rv1464 csd |
cysteine desulfurase | 719 | 720 ctx | neighborhood:712 |
Rv1465 |
nitrogen fixation related protein | 715 | 715 ctx | neighborhood:712 |
Rv1463 sufC |
ABC transporter ATP-binding protein | 730 | 714 ctx | neighborhood:712 |
Rv1462 sufD hyp |
hypothetical protein | 718 | 714 ctx | neighborhood:712 |
Rv1466 hyp |
hypothetical protein | 713 | 714 ctx | neighborhood:712 |
Rv0498 hyp |
hypothetical protein | 552 | 553 ctx | cooccurence:540 |
Rv3262 fbiB |
coenzyme F420:L-glutamate ligase | 537 | 520 | coexpression:427 |
Rv0360c hyp |
hypothetical protein | 536 | 518 ctx | cooccurence:518 |
Rv2867c |
GCN5-like N-acetyltransferase | 482 | 483 ctx | cooccurence:474 |
Rv2194 qcrC |
ubiquinol-cytochrome C reductase cytochrome subunit C | 463 | 464 ctx | cooccurence:446 |
Rv2111c pup |
ubiquitin-like protein Pup | 463 | 463 ctx | cooccurence:463 |
STRING combines evidence channels (neighborhood, fusion, cooccurrence, coexpression, experimental, database, text-mining) into a 0–1000 score. The ctx badge marks edges carried by the genomic-context channels (conserved neighborhood, fusion, phylogenetic co-occurrence), which are independent of orthology and structure and the strongest signal for an unknown gene. The no text-mining column recomputes the score from data alone, so a link that does not depend on the literature is visible. Association is a function hypothesis, not proof: corroborate with the operon context and the primary literature before assigning a function.
Evidence
- Legacy H37Rv annotation: antibiotic ABC transporter permease
- MTBC0 PGAP product: ABC transporter permease
- Pfam (hmmscan --cut_ga): ABC2_membrane PF01061.30 (E=1e-11), ABC2_membrane_3 PF12698.14 (E=1e-10)
- (auto-curated by rules from PGAP + Pfam + Foldseek; not hand-reviewed)
Sources
- Ancestral sequence & coordinates: Harrison LB et al. (2024), An imputed ancestral reference genome for the MTBC, doi:10.1101/2023.09.07.556366
- Product annotation: NCBI PGAP on MTBC0; legacy from H37Rv NC_000962.3 (RefSeq NP_215973.1)
- Domains: Pfam-A via hmmscan --cut_ga — ABC2_membrane (PF01061.30), ABC2_membrane_3 (PF12698.14)
- Sequence-level signal: ESM Atlas (EvolutionaryScale × BioHub) — exploratory
- Controlled vocabulary: eggNOG-mapper 2.1.12 (Cantalapiedra et al. 2021,
doi:10.1093/molbev/msab293), eggNOG 5.0 DB
(Huerta-Cepas et al. 2019) — OG
COG0842 - Curated reference: UniProt O86349 (TrEMBL, unreviewed; Evidence at protein level)
- Intra-MTBC selection: pN/pS and disruption from SPDI variants of 145 209 MTBC strains (this work, local collection vs H37Rv NC_000962.3)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
55 functional partner(s); context anchor
Rv1458c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001559|Rv1457c| MTQTNRPAFPAGTFSPDPRPNAVPLMLAAQFSLELKLLLRNGEQLLLTMFIPITLLVGLTLLPMGSFGHNRAATFVPVIMALAVISTAFTGQAIAVAFDRRYGALKRLGATPLPVWGIIAGKSLAVVAVVFLQAIILGAIGFALGWRPALTALTLGAGIIALGTAGFAALGLLLGGTLRAEIVLAVANLMWFVFAGFGALTLESNVIPTAFKWVARVTPSGALTEALSQAMTVSVDWFGIVVLAVWGALAALAALRWFRFT