Rv1322A Family assigned · medium auto-curated
H37Rv Rv1322A · MTBC0 - ·
152 aa · 1485313–1485771 (-) ·
RefSeq YP_177643.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Contains Glyoxalase (PF00903.32), Glyoxalase_3 (PF13468.13), Glyoxalase_4 (PF13669.13) 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.
Annotated on the H37Rv protein: this gene has no 1:1 ancestral MTBC0 anchor (PE/PPE, paralogue, IS element, or otherwise unanchored CDS).
Curated reference (UniProt)
| UniProt |
L7N6B1
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 |
E Amino acid transport and metabolism
|
|---|---|
| Preferred name | mce |
| eggNOG description | PFAM Glyoxalase bleomycin resistance protein dioxygenase |
| Orthologous group | COG0346 |
| EC number |
EC 5.1.99.1
|
| KEGG orthology |
K05606
|
| KEGG pathways |
map00280, map00630, map00640, map00720, map01100, map01120, map01200
|
| KEGG modules |
M00373, M00375, M00376, M00741
|
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 | 0.168 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 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 |
|---|---|---|---|---|
Glyoxalase | PF00903.32 | 4.6e-18 | 20–147 | Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily |
Glyoxalase_3 | PF13468.13 | 7.8e-10 | 21–128 | Glyoxalase-like domain |
Glyoxalase_4 | PF13669.13 | 5.2e-21 | 22–134 | Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: mutB (methylmalonyl-CoA mutase large subunit), high confidence from genomic context alone (score 978 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) |
|---|---|---|---|---|
Rv1493 mutB |
methylmalonyl-CoA mutase large subunit | 996 | 978 ctx | cooccurence:758 database:900 textmining:854 |
Rv1492 mutA |
methylmalonyl-CoA mutase small subunit | 994 | 974 ctx | cooccurence:738 database:900 textmining:818 |
Rv3280 accD5 |
propionyl-CoA carboxylase subunit beta | 969 | 968 ctx | cooccurence:636 database:900 |
Rv2247 accD6 |
acetyl-/propionyl-CoA carboxylase subunit beta | 961 | 959 ctx | cooccurence:533 database:900 |
Rv3285 accA3 |
bifunctional protein acetyl-/propionyl-CoA carboxylase subunit alpha AccA | 910 | 906 | database:900 |
Rv0973c accA2 |
acetyl/propionyl-CoA carboxylase subuit alpha | 909 | 905 | database:900 |
Rv2501c accA1 |
acetyl/propionyl-CoA carboxylase subuit alpha | 909 | 905 | database:900 |
Rv1496 meaB |
transport system kinase | 905 | 899 ctx | fusion:588 cooccurence:743 |
Rv1323 fadA4 |
acetyl-CoA acetyltransferase | 804 | 796 ctx | neighborhood:782 |
Rv3799c accD4 |
propionyl-CoA carboxylase subunit beta AccD | 686 | 671 ctx | cooccurence:604 |
Rv3153 nuoI |
NADH-quinone oxidoreductase subunit I | 680 | 660 | coexpression:649 |
Rv1324 |
thioredoxin | 571 | 550 ctx | neighborhood:537 |
Rv3148 nuoD |
NADH-quinone oxidoreductase subunit D | 536 | 516 | coexpression:502 |
Rv3316 sdhC |
succinate dehydrogenase cytochrome B-556 subunit | 528 | 508 | coexpression:505 |
Rv2195 qcrA |
ubiquinol-cytochrome C reductase rieske iron-sulfur subunit | 452 | 441 | coexpression:439 |
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
- Annotation from H37Rv (no MTBC0 1:1 anchor; H37Rv protein used): hypothetical protein
- Pfam (hmmscan --cut_ga): Glyoxalase PF00903.32 (E=5e-18), Glyoxalase_3 PF13468.13 (E=8e-10), Glyoxalase_4 PF13669.13 (E=5e-21)
- (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 YP_177643.1)
- Domains: Pfam-A via hmmscan --cut_ga — Glyoxalase (PF00903.32), Glyoxalase_3 (PF13468.13), Glyoxalase_4 (PF13669.13)
- 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
COG0346 - Curated reference: UniProt L7N6B1 (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 —
42 functional partner(s); context anchor
mutB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv1322A| MMTTDQVHARHMLATSLVTGLDHVGIAVADLDVAIEWYHDHLGMILVHEEINDDQGIREALLAVPGSAAQIQLMAPLDESSVIAKFLDKRGPGIQQLACRVSDLDAMCRRLRSQGVRLVYETARRGTANSRINFIHPKDAGGVLIELVEPAP