Rv1486c Family assigned · medium auto-curated
H37Rv Rv1486c · MTBC0 mtbc0_001589 ·
288 aa · 1685822–1686688 (-) ·
RefSeq NP_216002.2
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | hypothetical protein |
| Revised (this work) | Contains Rv1486c_N (PF27075.1), Rv1486c_C (PF27076.1) domain(s); putative function inferred from the domain architecture. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WLX3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv1486c |
UniProt still lists this protein as Uncharacterized protein Rv1486c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 2BK9Y |
|---|
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 | 0.483 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 8 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.53% of strains (773) · 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)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
Rv1486c_N | PF27075.1 | 3.0e-33 | 5–161 | Rv1486c-like protein, N-terminal domain |
Rv1486c_C | PF27076.1 | 2.1e-24 | 169–275 | Rv1486c-like protein, C-terminal domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: rsbW (anti-sigma factor RsbW), high confidence from genomic context alone (score 752 excluding text-mining). This association is the citable seed of a function hypothesis for this hypothetical protein.
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1488 hyp |
hypothetical protein | 777 | 777 ctx | neighborhood:767 |
Rv1489 hyp |
hypothetical protein | 774 | 775 ctx | neighborhood:764 |
Rv2360c hyp |
hypothetical protein | 760 | 760 ctx | cooccurence:758 |
Rv2743c hyp |
hypothetical protein | 753 | 753 ctx | cooccurence:750 |
Rv3287c rsbW |
anti-sigma factor RsbW | 751 | 752 ctx | cooccurence:750 |
Rv2138 lppL |
lipoprotein LppL | 732 | 733 ctx | cooccurence:732 |
Rv3212 hyp |
hypothetical protein | 727 | 727 ctx | cooccurence:725 |
Rv0817c lmeA hyp |
hypothetical protein | 720 | 720 ctx | cooccurence:720 |
Rv1109c hyp |
hypothetical protein | 717 | 718 ctx | cooccurence:716 |
Rv0556 |
transmembrane protein | 716 | 717 ctx | cooccurence:716 |
Rv2712c hyp |
hypothetical protein | 712 | 712 ctx | cooccurence:712 |
Rv0431 |
tuberculin-like peptide | 711 | 712 ctx | cooccurence:711 |
Rv0882 |
transmembrane protein | 697 | 697 ctx | cooccurence:697 |
Rv1487 hyp |
hypothetical protein | 833 | 692 ctx | neighborhood:644 textmining:479 |
Rv0419 lpqM |
lipoprotein peptidase LpqM | 692 | 692 ctx | cooccurence:688 |
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: hypothetical protein
- MTBC0 PGAP product: hypothetical protein
- Pfam (hmmscan --cut_ga): Rv1486c_N PF27075.1 (E=3e-33), Rv1486c_C PF27076.1 (E=2e-24)
- (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_216002.2)
- Domains: Pfam-A via hmmscan --cut_ga — Rv1486c_N (PF27075.1), Rv1486c_C (PF27076.1)
- 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
2BK9Y - Curated reference: UniProt P9WLX3 (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 —
89 functional partner(s); context anchor
rsbW - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001589|Rv1486c| MWCPSVSLSIWANAWLAGKAAPDDVLDALSLWAPTQSVAAYDAVAAGHTGLPWPDVHDAGTVSLLQTLRAAVGRRRLRGTINVVLPVPGDVRGLAAGTQFEHDALAAGEAVIVANPEDPGSAVGLVPEFSYGDVDEAAQSEPLTPELCALSWMVYSLPGAPVLEHYELGDAEYALRSAVRSAAEALSTIGLGSSDVANPRGLVEQLLESSRQHRVPDHAPSRALRVLENAAHVDAIIAVSAGLSRLPIGTQSLSDAQRATDALRPLTAVVRSARMSAVTAILHSAWPD