Rv2732c Family assigned · medium
H37Rv Rv2732c · MTBC0 mtbc0_002906 ·
204 aa · 3066790–3067404 (-) ·
RefSeq NP_217248.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transmembrane protein |
|---|---|
| MTBC0 PGAP re-annotation | hypothetical protein |
| Revised (this work) | Radical-SAM tRNA-modifying enzyme of the MiaB family (tRNA-2-methylthio-N6-dimethylallyladenosine synthase-like). RefSeq leaves it 'hypothetical protein'. |
Curated reference (UniProt)
| UniProt |
O33237
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable conserved transmembrane protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 2F4G5 |
|---|
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 | 0.715 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 4 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.16% of strains (239) · clonal |
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: miaB ((dimethylallyl)adenosine tRNA methylthiotransferase), high confidence from genomic context alone (score 882 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2733c miaB |
(dimethylallyl)adenosine tRNA methylthiotransferase | 882 | 882 ctx | neighborhood:882 |
Rv3205c hyp |
hypothetical protein | 780 | 781 ctx | cooccurence:774 |
Rv2446c |
integral membrane protein | 777 | 777 ctx | cooccurence:772 |
Rv3850 hyp |
hypothetical protein | 775 | 775 ctx | cooccurence:772 |
Rv3212 hyp |
hypothetical protein | 774 | 775 ctx | cooccurence:772 |
Rv1109c hyp |
hypothetical protein | 774 | 774 ctx | cooccurence:773 |
Rv0556 |
transmembrane protein | 774 | 774 ctx | cooccurence:773 |
Rv0358 hyp |
hypothetical protein | 774 | 774 ctx | cooccurence:773 |
Rv3438 hyp |
hypothetical protein | 773 | 773 ctx | cooccurence:772 |
Rv1632c hyp |
hypothetical protein | 772 | 773 ctx | cooccurence:772 |
Rv3217c |
integral membrane protein | 771 | 771 ctx | cooccurence:765 |
Rv1166 lpqW |
monoacyl phosphatidylinositol tetramannoside-binding protein LpqW | 767 | 767 ctx | cooccurence:765 |
Rv0383c ttfA hyp |
hypothetical protein | 766 | 766 ctx | cooccurence:766 |
Rv0475 hbhA |
heparin binding hemagglutinin HbhA | 764 | 764 ctx | cooccurence:762 |
Rv2171 lppM |
lipoprotein LppM | 763 | 763 ctx | cooccurence:762 |
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
- Foldseek vs AFDB-SwissProt: MiaB tRNA methylthiotransferase, TM 0.72, E 5e-19
- Structural homology vs AlphaFold-Swiss-Prot (Foldseek; 542k curated SwissProt structures), project 'Still unknown gene function' phase13, 2026-06-10. Fold/family-level, not a demonstrated function.
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_217248.1)
- 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
2F4G5 - Curated reference: UniProt O33237 (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 —
129 functional partner(s); context anchor
miaB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002906|Rv2732c| MMSHEHDAGDLDALRAEIEAAERRVAREIEPGARALVVAILVFVLLGSFILPHTGSVRGWDVLFSSHGAGRAAVALPSRVFAWLALVFGVGFSMLALLTRRWALAWVALAGSAMASGTGLLAVWSRQTVAAGHPGPGIGLIVAWITAIVLTFHWAQVVWSRTIVQLAAEERRRRVVAQQQCKTLLDHVQTDSEAGTTPDRGTDR