Rv2311 Family assigned · medium auto-curated
H37Rv Rv2311 · MTBC0 - ·
174 aa · 2583884–2584408 (+) ·
RefSeq NP_216827.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Contains SH3_Rv2311 (PF27170.1) 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 |
P9WLC1
SwissProt · reviewed
· Predicted
|
|---|---|
| UniProt name | Uncharacterized protein Rv2311 |
UniProt still lists this protein as Uncharacterized protein Rv2311; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
L Replication, recombination and repair
|
|---|---|
| eggNOG description | PFAM TrwC relaxase |
| Orthologous group | COG0507 |
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 | n/a |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 0 synonymous, 3 missense, 0 nonsense, 2 frameshift |
| Disruption | 2 distinct premature-stop/frameshift site(s); most common in 0.13% of strains (187) · clonal |
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 |
|---|---|---|---|---|
SH3_Rv2311 | PF27170.1 | 1.9e-22 | 26–75 | Rv2311 SH3-like barrel domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv3349c (transposase), medium confidence from genomic context alone (score 594 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) |
|---|---|---|---|---|
Rv0631c recC |
exonuclease V subunit gamma RecC | 823 | 800 | experimental:737 |
Rv2793c truB |
tRNA pseudouridine synthase B | 646 | 646 | database:632 |
Rv2312 hyp |
hypothetical protein | 610 | 611 ctx | neighborhood:609 |
Rv2529 hyp |
hypothetical protein | 647 | 604 ctx | cooccurence:431 |
Rv0630c recB |
exonuclease V subunit beta RecB | 649 | 602 | experimental:510 |
Rv1329c dinG |
ATP-dependent helicase DinG | 643 | 595 | database:537 |
Rv3349c |
transposase | 593 | 594 ctx | cooccurence:589 |
Rv2310 |
excisionase | 589 | 581 ctx | neighborhood:576 |
Rv2209 |
integral membrane protein | 545 | 528 ctx | cooccurence:528 |
Rv0002 dnaN |
DNA polymerase III subunit beta | 550 | 507 | experimental:474 |
Rv2116 lppK |
lipoprotein LppK | 548 | 505 | experimental:474 |
Rv2082 hyp |
hypothetical protein | 496 | 496 ctx | cooccurence:494 |
Rv2737c recA |
recombinase A | 549 | 488 | |
Rv0355c PPE8 |
PPE family protein PPE8 | 471 | 471 ctx | cooccurence:466 |
Rv3350c PPE56 |
PPE family protein PPE56 | 469 | 469 ctx | cooccurence:466 |
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): SH3_Rv2311 PF27170.1 (E=2e-22)
- (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_216827.1)
- Domains: Pfam-A via hmmscan --cut_ga — SH3_Rv2311 (PF27170.1)
- 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
COG0507 - Curated reference: UniProt P9WLC1 (SwissProt, reviewed; Predicted)
- 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 —
37 functional partner(s); context anchor
Rv3349c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv2311| MAPTGQAVDVAVREGAGDVGYSVERENLPADDPVRNGNRWRVIAVDTEHHRIAARRLGDGARAAFSGDYLHEHITHGYAITVHASQGTTAHSTHAVLGDNTSRATLYVAMTPARESNTAYLCERTAGEGARVDLAGWDLWVSGKAEAMSDEKSASPVWCRVGARCDHRGKRSCW