Rv2536 Family assigned · low auto-curated
H37Rv Rv2536 · MTBC0 mtbc0_002702 ·
230 aa · 2883342–2884034 (+) ·
RefSeq NP_217052.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transmembrane protein |
|---|---|
| MTBC0 PGAP re-annotation | B-4DMT family transporter |
| Revised (this work) | B-4DMT 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 |
P95017
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable conserved transmembrane protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 28VVH |
|---|
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 | 0.347 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 2 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: pepQ (cytoplasmic peptidase PepQ), high confidence from genomic context alone (score 796 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2535c pepQ |
cytoplasmic peptidase PepQ | 795 | 796 ctx | neighborhood:790 |
Rv2534c efp |
elongation factor P | 653 | 653 ctx | neighborhood:648 |
Rv2533c nusB |
N utilization substance protein B | 650 | 650 ctx | neighborhood:646 |
Rv2532c hyp |
hypothetical protein | 624 | 624 ctx | neighborhood:618 |
Rv2531c |
amino acid decarboxylase | 447 | 448 ctx | neighborhood:447 |
Rv2530A vapB39 |
antitoxin VapB39 | 407 | 407 ctx | neighborhood:404 |
Rv1508c |
membrane protein | 804 | 50 | textmining:803 |
Rv2284 lipM |
esterase LipM | 809 | 47 | textmining:808 |
Rv3707c hyp |
hypothetical protein | 631 | 47 | textmining:629 |
Rv2304c hyp |
hypothetical protein | 520 | 44 | textmining:519 |
Rv0559c hyp |
hypothetical protein | 805 | 41 | textmining:805 |
Rv0261c narK3 |
nitrate/nitrite transporter | 803 | 41 | textmining:803 |
Rv2305 hyp |
hypothetical protein | 519 | 41 | textmining:519 |
Rv2307c hyp |
hypothetical protein | 519 | 41 | textmining:519 |
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: transmembrane protein
- MTBC0 PGAP product: B-4DMT 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_217052.1)
- 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
28VVH - Curated reference: UniProt P95017 (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 —
14 functional partner(s); context anchor
pepQ - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002702|Rv2536| MTNWMLRGLAFAAAMVVLRLFQGALINAWQMLSGLISLVLLLLFAIGGVVWGVMDGRADAKASPDPDRRQDLAMTWLLAGLVAGALSGAVAWLISLFYKAIYTGGPINELTTFAAFTALIVFLVGIVGVAVGRWLVDRQLAKAPVRHHGLAAEHERAADTDVFSAVRADDSPTGEMQVAQPEAQTAAVATVEREAPTEVIRTTESDTPTEVIRTDTEADQTKPGDEPKKD