Rv0497 Family assigned · medium auto-curated
H37Rv Rv0497 · MTBC0 mtbc0_000523 ·
310 aa · 590718–591650 (+) ·
RefSeq NP_215011.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transmembrane protein |
|---|---|
| MTBC0 PGAP re-annotation | hypothetical protein |
| Revised (this work) | Contains Rv0497_C (PF27548.1) 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 |
P9WKU3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv0497 |
UniProt still lists this protein as Uncharacterized protein Rv0497; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 2DY9N |
|---|---|
| Gene Ontology (15) |
GO:0005575, GO:0005618, GO:0005623, GO:0008150, GO:0030312, GO:0040007, GO:0044110, GO:0044116, GO:0044117, GO:0044119, GO:0044403, GO:0044419 +3 more
|
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 | 0.504 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 synonymous, 7 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 |
|---|---|---|---|---|
Rv0497_C | PF27548.1 | 4.7e-19 | 260–307 | Rv0497 C-terminal domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: proC (pyrroline-5-carboxylate reductase), high confidence from genomic context alone (score 816 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0499 hyp |
hypothetical protein | 906 | 907 ctx | neighborhood:846 cooccurence:403 |
Rv0496 ppx1 hyp |
hypothetical protein | 887 | 887 ctx | neighborhood:881 |
Rv0500 proC |
pyrroline-5-carboxylate reductase | 815 | 816 ctx | neighborhood:815 |
Rv0498 hyp |
hypothetical protein | 786 | 786 ctx | neighborhood:783 |
Rv2360c hyp |
hypothetical protein | 766 | 767 ctx | cooccurence:766 |
Rv0996 |
transmembrane protein | 760 | 761 ctx | cooccurence:758 |
Rv1610 |
membrane protein | 729 | 729 ctx | cooccurence:725 |
Rv3212 hyp |
hypothetical protein | 725 | 726 ctx | cooccurence:722 |
Rv0863 hyp |
hypothetical protein | 716 | 717 ctx | cooccurence:715 |
Rv3446c hyp |
hypothetical protein | 711 | 712 ctx | cooccurence:710 |
Rv0475 hbhA |
heparin binding hemagglutinin HbhA | 710 | 711 ctx | cooccurence:707 |
Rv1111c hyp |
hypothetical protein | 706 | 706 ctx | cooccurence:697 |
Rv1109c hyp |
hypothetical protein | 698 | 699 ctx | cooccurence:697 |
Rv0481c hyp |
hypothetical protein | 696 | 696 ctx | cooccurence:695 |
Rv0556 |
transmembrane protein | 693 | 694 ctx | cooccurence:692 |
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: hypothetical protein
- Pfam (hmmscan --cut_ga): Rv0497_C PF27548.1 (E=5e-19)
- (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_215011.1)
- Domains: Pfam-A via hmmscan --cut_ga — Rv0497_C (PF27548.1)
- 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
2DY9N - Curated reference: UniProt P9WKU3 (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 —
145 functional partner(s); context anchor
proC - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000523|Rv0497| MTGPHPETESSGNRQISVAELLARQGVTGAPARRRRRRRGDSDAITVAELTGEIPIIRDDHHHAGPDAHASQSPAANGRVQVGEAAPQSPAEPVAEQVAEEPTRTVYWSQPEPRWPKSPPQDRRESGPELSEYPRPLRHTHSDRAPAGPPSGAEHMSPDPVEHYPDLWVDVLDTEVGEAEAETEVREAQPGRGERHAAAAAAGTDVEGDGAAEARVARRALDVVPTLWRGALVVLQSILAVAFGAGLFIAFDQLWRWNSIVALVLSVMVILGLVVSVRAVRKTEDIASTLIAVAVGALITLGPLALLQSG