Rv0991c Family assigned · medium auto-curated
H37Rv Rv0991c · MTBC0 mtbc0_001062 ·
110 aa · 1115508–1115840 (-) ·
RefSeq NP_215506.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | FmdB family zinc ribbon protein |
| Revised (this work) | FmdB family zinc ribbon protein. Pfam: Zn_ribbon_8 (PF09723.16). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O05574
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Conserved serine rich protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | regulatory protein, FmdB family |
| Orthologous group | COG2331 |
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 | 0.323 · 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 |
|---|---|---|---|---|
Zn_ribbon_8 | PF09723.16 | 8.7e-14 | 1–40 | Zinc ribbon domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0992c (5-formyltetrahydrofolate cyclo-ligase), high confidence from genomic context alone (score 792 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) |
|---|---|---|---|---|
Rv0992c |
5-formyltetrahydrofolate cyclo-ligase | 791 | 792 ctx | neighborhood:791 |
Rv0993 galU |
UTP--glucose-1-phosphate uridylyltransferase | 721 | 721 ctx | neighborhood:721 |
Rv0990c hyp |
hypothetical protein | 909 | 717 ctx | neighborhood:645 textmining:692 |
Rv0994 moeA1 |
molybdopterin molybdenumtransferase 1 | 663 | 663 ctx | neighborhood:662 |
Rv0995 rimJ |
ribosomal-protein-alanine acetyltransferase RimJ | 643 | 643 ctx | neighborhood:638 |
Rv0989c grcC2 |
polyprenyl-diphosphate synthase GrcC | 467 | 467 ctx | neighborhood:465 |
Rv0996 |
transmembrane protein | 415 | 415 ctx | neighborhood:409 |
Rv3418c groES |
chaperonin GroES | 500 | 155 | textmining:433 |
Rv0440 groEL2 |
molecular chaperone GroEL | 425 | 121 | |
Rv3417c groEL1 |
chaperonin GroEL | 547 | 115 | textmining:510 |
Rv2373c dnaJ2 |
chaperone protein DnaJ | 745 | 101 | textmining:729 |
Rv0350 dnaK |
chaperone protein DnaK | 535 | 92 | textmining:510 |
Rv2374c hrcA |
heat-inducible transcription repressor HrcA | 670 | 80 | textmining:657 |
Rv2012 hyp |
hypothetical protein | 553 | 55 | textmining:547 |
Rv3224 |
iron-regulated short-chain dehydrogenase/reductase | 730 | 50 | textmining:728 |
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: FmdB family zinc ribbon protein
- Pfam (hmmscan --cut_ga): Zn_ribbon_8 PF09723.16 (E=9e-14)
- (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_215506.1)
- Domains: Pfam-A via hmmscan --cut_ga — Zn_ribbon_8 (PF09723.16)
- 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
COG2331 - Curated reference: UniProt O05574 (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 —
17 functional partner(s); context anchor
Rv0992c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001062|Rv0991c| MPTYSYECTQCANRFDVVQAFTDDALTTCERCSGRLRKLFNAVGVVFKGTGFYRTDSRESGKKSKSQTNGSSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV