Rv1634 Resolved · high auto-curated
H37Rv Rv1634 · MTBC0 mtbc0_001742 ·
471 aa · 1851132–1852547 (+) ·
RefSeq NP_216150.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | multidrug-efflux transporter |
|---|---|
| MTBC0 PGAP re-annotation | MFS transporter |
| Revised (this work) | MFS transporter. Pfam: MFS_1 (PF07690.22). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WJX3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable multidrug-efflux transporter Rv1634 |
| Curated function | Could be involved in fluoroquinolones efflux. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolismG Carbohydrate transport and metabolismP Inorganic ion transport and metabolism
|
|---|---|
| eggNOG description | Major Facilitator |
| Orthologous group | COG0477 |
| Gene Ontology (26) |
GO:0003674, GO:0005215, GO:0005575, GO:0005623, GO:0005886, GO:0005887, GO:0006810, GO:0008150, GO:0015562, GO:0015893, GO:0016020, GO:0016021 +14 more
|
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 | 0.47 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 synonymous, 6 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 |
|---|---|---|---|---|
MFS_1 | PF07690.22 | 1.4e-31 | 26–423 | Major Facilitator Superfamily |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: uvrB (excinuclease ABC subunit UvrB), high confidence from genomic context alone (score 889 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1633 uvrB |
excinuclease ABC subunit UvrB | 889 | 889 ctx | neighborhood:882 |
Rv3608c folP1 |
dihydropteroate synthase | 746 | 736 | coexpression:732 |
Rv2325c hyp |
hypothetical protein | 733 | 733 | coexpression:733 |
Rv1632c hyp |
hypothetical protein | 468 | 467 ctx | neighborhood:464 |
Rv1902c nanT |
sialic acid-transport integral membrane protein NanT | 417 | 418 ctx | cooccurence:412 |
Rv1250 |
MFS-type drug transporter | 543 | 314 | |
Rv2327 hyp |
hypothetical protein | 400 | 309 | |
Rv0783c emrB |
multidrug resistance protein EmrB | 410 | 271 | |
Rv1258c tap |
multidrug-efflux transporter | 497 | 244 | |
Rv0507 mmpL2 |
transmembrane transport protein MmpL2 | 477 | 116 | textmining:433 |
Rv1747 |
ABC transporter ATP-binding protein/permease | 618 | 85 | textmining:600 |
Rv0924c mntH |
divalent metal cation transporter MntH | 464 | 65 | textmining:450 |
Rv2209 |
integral membrane protein | 523 | 55 | textmining:516 |
Rv2686c |
antibiotic ABC transporter permease | 696 | 54 | textmining:692 |
Rv1458c |
antibiotic ABC transporter ATP-binding protein | 541 | 54 | textmining:536 |
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: multidrug-efflux transporter
- MTBC0 PGAP product: MFS transporter
- Pfam (hmmscan --cut_ga): MFS_1 PF07690.22 (E=1e-31)
- (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_216150.1)
- Domains: Pfam-A via hmmscan --cut_ga — MFS_1 (PF07690.22)
- 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
COG0477 - Curated reference: UniProt P9WJX3 (SwissProt, reviewed; 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 —
17 functional partner(s); context anchor
uvrB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001742|Rv1634| MTETASETGSWRELLSRYLGTSIVLAGGVALYATNEFLTISLLPSTIADIGGSRLYAWVTTLYLVGSVVAATTVNTMLLRVGARSSYLMGLAVFGLASLVCAAAPSMQILVAGRTLQGIAGGLLAGLGYALINSTLPKSLWTRGSALVSAMWGVATLIGPATGGLFAQLGLWRWAFGVMTLLTALMAMLVPVALGAGRVGPGGETPVGSTHKVPVWSLLLMGAAALAISVAALPNYLVQTAGLLAAAALLVAVFVVVDWRIHAAVLPPSVFGSGPLKWIYLTMSVQMIAAMVDTYVPLFGQRLGHLTPVAAGFLGAALAVGWTVGEVASASLNSARVIGHVVAAAPLVMASGLALGAVTQRADAPVGIIALWALALLIIGTGIGIAWPHLTVRAMDSVADPAESSAAAAAINVVQLISGAFGAGLAGVVVNTAKGGEVAAARGLYMAFTVLAAAGVIASYQATHRDRRLPR