Rv0421c Family assigned · medium auto-curated
H37Rv Rv0421c · MTBC0 mtbc0_000442 ·
209 aa · 510497–511126 (-) ·
RefSeq NP_214935.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | alpha/beta family hydrolase |
| Revised (this work) | Alpha/beta family hydrolase. Pfam: Abhydrolase_11 (PF20408.5). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P96267
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | KANL3/Tex30 alpha/beta hydrolase-like domain-containing protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | hydrolase of the alpha beta-hydrolase fold |
| Orthologous group | COG3571 |
| KEGG orthology |
K07020
|
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 | 1.157 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 3 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 |
|---|---|---|---|---|
Abhydrolase_11 | PF20408.5 | 2.2e-30 | 20–188 | Alpha/beta hydrolase domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: thiD (hydroxymethylpyrimidine/phosphomethylpyrimidine kinase), high confidence from genomic context alone (score 971 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) |
|---|---|---|---|---|
Rv0422c thiD |
hydroxymethylpyrimidine/phosphomethylpyrimidine kinase | 970 | 971 ctx | neighborhood:882 coexpression:761 |
Rv0423c thiC |
phosphomethylpyrimidine synthase | 848 | 848 ctx | neighborhood:846 |
Rv3693 |
membrane protein | 744 | 744 | coexpression:744 |
Rv0420c |
transmembrane protein | 489 | 489 ctx | neighborhood:486 |
Rv0424c hyp |
hypothetical protein | 489 | 489 ctx | neighborhood:466 |
Rv2828A hyp |
hypothetical protein | 411 | 411 | |
Rv2923c hyp |
hypothetical protein | 886 | 159 | textmining:870 |
Rv1841c hyp |
hypothetical protein | 541 | 100 | textmining:511 |
Rv3724B cut5b |
Rv3724B, (MTV025.072), len: 187 aa. Probable cut5b,truncated cutinase, similar to C-terminal end of others e.g. Q9XB09|RVD2-RV1758 protein ( | 812 | 68 | textmining:807 |
Rv0982 mprB |
two component histidine-protein kinase/phosphatase MprB | 446 | 58 | textmining:437 |
Rv2593c ruvA |
Holliday junction ATP-dependent DNA helicase RuvA | 553 | 55 | textmining:547 |
Rv2676c hemQ hyp |
hypothetical protein | 420 | 53 | textmining:413 |
Rv1907c hyp |
hypothetical protein | 804 | 47 | textmining:803 |
Rv2033c hyp |
hypothetical protein | 416 | 47 | textmining:413 |
Rv0360c hyp |
hypothetical protein | 416 | 46 | textmining:413 |
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: alpha/beta family hydrolase
- Pfam (hmmscan --cut_ga): Abhydrolase_11 PF20408.5 (E=2e-30)
- (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_214935.1)
- Domains: Pfam-A via hmmscan --cut_ga — Abhydrolase_11 (PF20408.5)
- 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
COG3571 - Curated reference: UniProt P96267 (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 —
20 functional partner(s); context anchor
thiD - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000442|Rv0421c| MNLDQIAGVAHQPAGPPHGVVVLTHGAGGSRESTLLQQVCAEWTRRGWLAVRYNLPYRRRRPTGPPSGSGSGDRAGIVEAIQLCRGLAEGPLIAGGHSYGGRQTSMVVAAGQAPVDVLTLFSYPVHPPGKPERVRTEHLPGIAVPTVFTHGTADPFGTLAQVRSAAAMVSAPTEVVEITGARHDLGSKTLDVARLAVDAALRLSAGQIA