Rv2729c Family assigned · low auto-curated
H37Rv Rv2729c · MTBC0 mtbc0_002903 ·
301 aa · 3063985–3064890 (-) ·
RefSeq NP_217245.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | integral membrane protein |
|---|---|
| MTBC0 PGAP re-annotation | DMT family transporter |
| Revised (this work) | DMT family transporter. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O33234
TrEMBL · unreviewed
· Predicted
|
|---|---|
| UniProt name | Probable conserved integral membrane alanine valine and leucine rich protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolismG Carbohydrate transport and metabolism
|
|---|---|
| eggNOG description | COG0697 Permeases of the drug metabolite transporter (DMT) superfamily |
| Orthologous group | COG0697 |
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 | 1.013 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 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)
No Pfam-A domain above the gathering threshold (or not yet scanned).
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv3434c (transmembrane protein), medium confidence from genomic context alone (score 624 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1326c glgB |
1,4-alpha-glucan branching protein | 805 | 782 | coexpression:411 database:572 |
Rv1562c treZ |
malto-oligosyltrehalose trehalohydrolase | 791 | 781 | coexpression:409 database:572 |
Rv2529 hyp |
hypothetical protein | 714 | 704 | database:516 |
Rv2731 hyp |
hypothetical protein | 645 | 631 ctx | neighborhood:570 |
Rv3434c |
transmembrane protein | 624 | 624 ctx | cooccurence:624 |
Rv2730 hyp |
hypothetical protein | 606 | 606 ctx | neighborhood:606 |
Rv2727c miaA |
tRNA delta(2)-isopentenylpyrophosphate transferase | 604 | 588 ctx | neighborhood:558 |
Rv2728c hyp |
hypothetical protein | 570 | 570 ctx | neighborhood:558 |
Rv3264c manB |
D-alpha-D-mannose-1-phosphate guanylyltransferase ManB | 586 | 561 | |
Rv1782 eccB5 |
ESX-5 type VII secretion system protein EccB5 | 524 | 524 ctx | cooccurence:513 |
Rv2726c dapF |
diaminopimelate epimerase | 524 | 504 ctx | neighborhood:503 |
Rv3809c glf |
UDP-galactopyranose mutase | 512 | 487 | coexpression:470 |
Rv1328 glgP |
glycogen phosphorylase | 511 | 481 | |
Rv3465 rmlC |
dTDP-4-dehydrorhamnose 3,5-epimerase | 502 | 472 | coexpression:454 |
Rv2725c hflX |
GTP-binding protein HflX | 472 | 472 ctx | neighborhood:472 |
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: integral membrane protein
- MTBC0 PGAP product: DMT family transporter
- (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_217245.1)
- Domains: Pfam-A via hmmscan --cut_ga — none above threshold
- 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
COG0697 - Curated reference: UniProt O33234 (TrEMBL, unreviewed; Predicted)
- 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 —
39 functional partner(s); context anchor
Rv3434c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002903|Rv2729c| MASVEFATILALGAALLAGIGYVTLQRSARQVTAEEYVGHFTLFHLSLRHALWWLGSLAAVASFTLQAIALTMGSVVLVQSLQATALLFALLIDARLTHHRCTPREWMWAVLLAGAVAVIVMSGNPAAGTTRAPFSTWAVVAVVVVPAVVLCVVGARIASGSLSAVLLAVASSATLAVFTVLTKGVVTELGEGFATLIRTPELYAWILVLPIGLMLQQSSLRVGALTASLPTITVARPVIASVLGITVLDEVLHTGRVALVALVAAVVVVVVATVALARDEVAMMTVSAGELGAAGQLAVR