Rv0634c Resolved · high auto-curated
H37Rv Rv0634c · MTBC0 mtbc0_000667 ·
237 aa · 733873–734586 (-) ·
RefSeq NP_215148.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | glyoxalase II |
|---|---|
| MTBC0 PGAP re-annotation | MBL fold metallo-hydrolase |
| Revised (this work) | MBL fold metallo-hydrolase. Pfam: Lactamase_B (PF00753.34). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6Y4A5
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Possible glyoxalase II |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | gloB |
| eggNOG description | Metallo-beta-lactamase superfamily |
| Orthologous group | COG0491 |
| Gene Ontology (58) |
GO:0003674, GO:0003824, GO:0004416, GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005739, GO:0005759, GO:0005829, GO:0006082, GO:0006090 +46 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 | 0.335 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 1 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 |
|---|---|---|---|---|
Lactamase_B | PF00753.34 | 4.2e-23 | 29–203 | Metallo-beta-lactamase superfamily |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: echA3 (enoyl-CoA hydratase EchA3), high confidence from genomic context alone (score 728 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0632c echA3 |
enoyl-CoA hydratase EchA3 | 728 | 728 ctx | neighborhood:712 |
Rv0331 |
dehydrogenase/reductase | 651 | 636 | database:583 |
Rv0634A hyp |
hypothetical protein | 582 | 582 ctx | neighborhood:576 |
Rv0633c hyp |
hypothetical protein | 539 | 539 ctx | neighborhood:535 |
Rv2367c ybeY |
endoribonuclease | 434 | 407 | |
Rv2165c rsmH |
rRNA small subunit methyltransferase H | 400 | 401 | |
Rv3455c truA |
tRNA pseudouridine synthase A | 422 | 400 | |
Rv0390 hyp |
hypothetical protein | 659 | 295 | textmining:537 |
Rv1066 hyp |
hypothetical protein | 658 | 293 | textmining:537 |
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: glyoxalase II
- MTBC0 PGAP product: MBL fold metallo-hydrolase
- Pfam (hmmscan --cut_ga): Lactamase_B PF00753.34 (E=4e-23)
- (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_215148.1)
- Domains: Pfam-A via hmmscan --cut_ga — Lactamase_B (PF00753.34)
- 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
COG0491 - Curated reference: UniProt I6Y4A5 (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 —
9 functional partner(s); context anchor
echA3 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000667|Rv0634c| MSKDRLYFRQLLSGRDFAVGDMFATQMRNFAYLIGDRTTGDCVVVDPAYAAGDLLDALESDDMQLSGVLVTHHHPDHVGGSMMGFQLPGLAELLERASVPVHVNTHEALWVSRVTGIPVGDLITHEHGDKVSVGDIDIELLHTPGHTPGSQCFLLDGRLVAGDTLFLEGCGRTDFPGGDSDEMYRSLRQLAELPGDPTVFPGHWYSAEPSASLSEVKRSNYVYRPASLDQWRMLMGG