Rv0365c Family assigned · medium auto-curated
H37Rv Rv0365c · MTBC0 mtbc0_000385 ·
376 aa · 446429–447559 (-) ·
RefSeq NP_214879.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | glycoside hydrolase family 76 protein |
| Revised (this work) | Glycoside hydrolase family 76 protein. Pfam: Glyco_hydro_76 (PF03663.21). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O06315
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Conserved protein |
UniProt still lists this protein as Conserved protein; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
G Carbohydrate transport and metabolism
|
|---|---|
| eggNOG description | hydrolase, family 76 |
| Orthologous group | COG4833 |
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 | 0.197 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 synonymous, 4 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 |
|---|---|---|---|---|
Glyco_hydro_76 | PF03663.21 | 8.6e-31 | 9–352 | Glycosyl hydrolase family 76 |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0369c (membrane oxidoreductase), high confidence from genomic context alone (score 744 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) |
|---|---|---|---|---|
Rv0366c hyp |
hypothetical protein | 968 | 766 ctx | neighborhood:757 textmining:870 |
Rv0369c |
membrane oxidoreductase | 744 | 744 ctx | neighborhood:742 |
Rv0368c hyp |
hypothetical protein | 975 | 743 ctx | neighborhood:742 textmining:907 |
Rv1459c mptB |
alpha-(1->6)-mannopyranosyltransferase | 730 | 730 ctx | cooccurence:730 |
Rv2174 mptA |
alpha(1->6)-mannopyranosyltransferase A | 720 | 721 ctx | cooccurence:719 |
Rv0370c |
oxidoreductase | 684 | 685 ctx | neighborhood:683 |
Rv0371c hyp |
hypothetical protein | 682 | 683 ctx | neighborhood:683 |
Rv0374c |
carbon monoxyde dehydrogenase small subunit | 677 | 677 ctx | neighborhood:676 |
Rv0367c hyp |
hypothetical protein | 955 | 674 ctx | neighborhood:670 textmining:870 |
Rv2049c hyp |
hypothetical protein | 665 | 666 ctx | cooccurence:664 |
Rv3415c hyp |
hypothetical protein | 654 | 654 ctx | cooccurence:652 |
Rv0882 |
transmembrane protein | 630 | 630 ctx | cooccurence:630 |
Rv0372c hyp |
hypothetical protein | 619 | 620 ctx | neighborhood:620 |
Rv0556 |
transmembrane protein | 587 | 588 ctx | cooccurence:585 |
Rv1159 pimE |
polyprenol-phosphate-mannose-dependent alpha-(1-2)-phosphatidylinositol pentamannoside mannosyltransferase | 585 | 585 ctx | cooccurence:583 |
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: glycoside hydrolase family 76 protein
- Pfam (hmmscan --cut_ga): Glyco_hydro_76 PF03663.21 (E=9e-31)
- (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_214879.1)
- Domains: Pfam-A via hmmscan --cut_ga — Glyco_hydro_76 (PF03663.21)
- 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
COG4833 - Curated reference: UniProt O06315 (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 —
49 functional partner(s); context anchor
Rv0369c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000385|Rv0365c| MNLANRAASAETAVTQRHLRRLWALPGTQLAVVAWPSTRRDRLFGSWHYWWQAHLLDCLVDAQLRDPQPQRRARINRQVRSHRVRNNFSWLNSYYDDMAWLALALERADRVAGVRRRRALPKLTNQFVEAWVPEDGGGIPWRKQDQFFNAPANGPAGLFLARYPDQYGKRLKRAEQMADWIDRTLIDPETHLVFDGIKAGSLVRAQYTYCQGVVLGLETELAVRTGPAARARHCARVHRLVAAVNEHMAPLGVLRGAGGGDGGLFAGITARYLALVATTLPGDSADDAAARDTARAIVLASAQSAWDYRQTVDGLPVFGAFWDREAELPTAGGEQARSVRGAVHSSAIAERDLSVQLSGWMLMEAAHSAAAVSSLG