Rv0332 Family assigned · medium auto-curated
H37Rv Rv0332 · MTBC0 - ·
261 aa · 397442–398227 (+) ·
RefSeq NP_214846.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Contains MDMPI_N (PF11716.14), MDMPI_C (PF07398.17) 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 |
O07256
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 |
S Function unknown
|
|---|---|
| eggNOG description | MDMPI C-terminal domain |
| Orthologous group | COG3550 |
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 | 0.441 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 5 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 |
|---|---|---|---|---|
MDMPI_N | PF11716.14 | 1.5e-25 | 20–140 | Mycothiol maleylpyruvate isomerase N-terminal domain |
MDMPI_C | PF07398.17 | 1.6e-17 | 153–253 | MDMPI C-terminal domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: rmlA (glucose-1-phosphate thymidylyltransferase), high confidence from genomic context alone (score 811 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) |
|---|---|---|---|---|
Rv2515c hyp |
hypothetical protein | 936 | 927 | experimental:916 |
Rv0333 hyp |
hypothetical protein | 869 | 870 ctx | neighborhood:843 |
Rv0334 rmlA |
glucose-1-phosphate thymidylyltransferase | 818 | 811 ctx | neighborhood:805 |
Rv0331 |
dehydrogenase/reductase | 588 | 589 ctx | neighborhood:589 |
Rv0322 udgA |
UDP-glucose 6-dehydrogenase UdgA | 545 | 545 ctx | neighborhood:544 |
Rv2483c plsC |
bifunctional L-3-phosphoserine phosphatase/1-acyl-sn-glycerol-3-phosphate acyltransferase | 536 | 536 ctx | cooccurence:533 |
Rv0941c hyp |
hypothetical protein | 522 | 523 ctx | cooccurence:518 |
Rv2017 |
transcriptional regulator | 541 | 517 | experimental:434 |
Rv3183 higA3 |
transcriptional regulator | 525 | 500 | experimental:434 |
Rv0465c ramB |
HTH-type transcriptional regulator | 523 | 497 | experimental:434 |
Rv2021c higA2 |
transcriptional regulator | 520 | 494 | experimental:434 |
Rv0474 |
HTH-type transcriptional regulator | 515 | 489 | experimental:434 |
Rv2745c clgR |
transcriptional regulator ClgR | 507 | 480 | experimental:434 |
Rv1129c prpR |
transcriptional regulator | 506 | 479 | experimental:434 |
Rv3849 espR |
ESX-1 transcriptional regulator EspR | 504 | 477 | experimental:434 |
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): MDMPI_N PF11716.14 (E=1e-25), MDMPI_C PF07398.17 (E=2e-17)
- (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_214846.1)
- Domains: Pfam-A via hmmscan --cut_ga — MDMPI_N (PF11716.14), MDMPI_C (PF07398.17)
- 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
COG3550 - Curated reference: UniProt O07256 (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 —
21 functional partner(s); context anchor
rmlA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv0332| MRKPASSLAKVDYSSAYLEQTHAFGELIRNVDQSTPVPTCPGWSLGQLFRHVGRGDRWAAQIVRDRLDHFLDPRSVEGGKPPPDPDDAISWLYGGARLLVDAVEQTGVETPVWTFLGPRPAGWWVRRRLHEVAVHRADVAITVGGEFTLEPNVAADGISEFLERIAVQAGSGGTPLPLEDDDTLHLHATDPGLLEAGEWTVRRDERGVTWSHRHGKGAVALRGGATELLLAMVRRLSVADTGIELLGDAGVWQKWLDRTPL