Rv0037c Resolved · high auto-curated
H37Rv Rv0037c · MTBC0 mtbc0_000042 ·
441 aa · 39976–41301 (-) ·
RefSeq NP_214551.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | MFS-type 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 |
P9WJY1
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized MFS-type transporter Rv0037c |
UniProt still lists this protein as Uncharacterized MFS-type transporter Rv0037c; the revised annotation above is ahead of the current UniProt record.
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 Superfamily |
| Orthologous group | COG0477 |
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 | 0.656 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 5 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 | 2.9e-11 | 45–395 | Major Facilitator Superfamily |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv2609c (membrane protein), medium confidence from genomic context alone (score 647 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0036c hyp |
hypothetical protein | 818 | 819 ctx | neighborhood:816 |
Rv0038 hyp |
hypothetical protein | 765 | 765 ctx | neighborhood:762 |
Rv2609c |
membrane protein | 647 | 647 ctx | cooccurence:638 |
Rv1698 mctB |
copper transporter MctB | 521 | 522 ctx | cooccurence:520 |
Rv2867c |
GCN5-like N-acetyltransferase | 502 | 503 ctx | cooccurence:498 |
Rv2180c |
integral membrane protein | 495 | 495 ctx | cooccurence:492 |
Rv2611c |
phosphatidylinositol mannoside acyltransferase | 504 | 482 ctx | cooccurence:482 |
Rv2610c pimA |
alpha-(1-2)-phosphatidylinositol mannosyltransferase | 476 | 469 ctx | cooccurence:464 |
Rv3658c |
transmembrane protein | 468 | 468 ctx | cooccurence:462 |
Rv2905 lppW |
lipoprotein LppW | 482 | 463 ctx | cooccurence:461 |
Rv1836c hyp |
hypothetical protein | 449 | 449 ctx | cooccurence:446 |
Rv2171 lppM |
lipoprotein LppM | 442 | 443 ctx | cooccurence:440 |
Rv3755c hyp |
hypothetical protein | 426 | 426 ctx | cooccurence:423 |
Rv1987 |
chitinase | 425 | 422 ctx | cooccurence:422 |
Rv1222 rseA |
anti-sigma E factor RseA | 410 | 411 ctx | cooccurence:407 |
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: MFS-type transporter
- MTBC0 PGAP product: MFS transporter
- Pfam (hmmscan --cut_ga): MFS_1 PF07690.22 (E=3e-11)
- (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_214551.1)
- 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 P9WJY1 (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 —
19 functional partner(s); context anchor
Rv2609c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000042|Rv0037c| MPRVEVGLVIHSRMHARAPVDVWRSVRSLPDFWRLLQVRVASQFGDGLFQAGLAGALLFNPDRAADPMAIAGAFAVLFLPYSLLGPFAGALMDRWDRRWVLVGANTGRLALIAGVGTILAVGAGDVPLLVGALVANGLARFVASGLSAALPHVVPREQVVTMNSVAIASGAVSAFLGANFMLLPRWLLGSGDEGASAIVFLVAIPVSIALLWSLRFGPRVLGPDDTERAIHGSAVYAVVTGWLHGARTVVQLPTVAAGLSGLAAHRMVVGINSLLILLLVRHVTARAVGGLGTALLFFAATGLGAFLANVLTPTAIRRWGRYATANGALAAAATIQVAAAGLLVPVMVVCGFLLGVAGQVVKLCADSAMQMDVDDALRGHVFAVQDALFWVSYILSITVAAALIPEHGHAPVFVLFGSAIYLAGLVVHTIVGRRGQPVIGR