Rv0312 Family assigned · medium auto-curated
H37Rv Rv0312 · MTBC0 mtbc0_000332 ·
620 aa · 383879–385741 (+) ·
RefSeq NP_214826.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | Hsp70 family protein |
| Revised (this work) | Hsp70 family protein. Pfam: HSP70 (PF00012.27). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O07239
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Conserved hypothetical proline and threonine rich protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
O Post-translational modification, protein turnover, chaperones
|
|---|---|
| eggNOG description | Molecular chaperone |
| Orthologous group | COG0443 |
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 | 1.105 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 9 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 |
|---|---|---|---|---|
HSP70 | PF00012.27 | 3.0e-17 | 158–347 | Hsp70 protein |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: pirG (cell surface protein), high confidence from genomic context alone (score 860 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) |
|---|---|---|---|---|
Rv2299c htpG |
chaperone protein HtpG | 977 | 969 | coexpression:668 experimental:772 database:622 |
Rv0351 grpE |
stress response protein GrpE | 961 | 947 | coexpression:704 experimental:773 |
Rv0352 dnaJ1 |
chaperone protein DnaJ | 929 | 919 | coexpression:629 experimental:476 database:601 |
Rv2373c dnaJ2 |
chaperone protein DnaJ | 929 | 918 | coexpression:626 experimental:476 database:601 |
Rv3810 pirG |
cell surface protein | 865 | 860 ctx | cooccurence:452 coexpression:754 |
Rv2721c hyp |
hypothetical protein | 851 | 850 | coexpression:827 |
Rv3417c groEL1 |
chaperonin GroEL | 851 | 828 | coexpression:627 experimental:410 |
Rv0440 groEL2 |
molecular chaperone GroEL | 851 | 827 | coexpression:629 experimental:410 |
Rv0040c mtc28 hyp |
hypothetical protein | 812 | 812 | coexpression:812 |
Rv3596c clpC1 |
ATP-dependent protease ATP-binding subunit ClpC | 832 | 808 | coexpression:614 experimental:508 |
Rv1469 ctpD |
cobalt/nickel-exporting P-type ATPase | 816 | 808 | coexpression:785 |
Rv0384c clpB |
chaperone protein ClpB | 831 | 807 | coexpression:612 experimental:508 |
Rv2667 clpC2 |
ATP-dependent protease ATP-binding subunit ClpC | 831 | 807 | coexpression:612 experimental:508 |
Rv0342 iniA |
isoniazid inductible protein IniA | 806 | 795 ctx | cooccurence:607 database:411 |
Rv0888 spmT hyp |
hypothetical protein | 792 | 788 | coexpression:734 |
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: Hsp70 family protein
- Pfam (hmmscan --cut_ga): HSP70 PF00012.27 (E=3e-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_214826.1)
- Domains: Pfam-A via hmmscan --cut_ga — HSP70 (PF00012.27)
- 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
COG0443 - Curated reference: UniProt O07239 (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 —
228 functional partner(s); context anchor
pirG - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000332|Rv0312| MYDPLGLSIGTTNLVAAGNGGPPVTRRAVLTLYPHCAPKIGVPSQNPNLIEPGALMSGFVERIGDAVALVSPDGSVHDPDLLLVEALDAMVLTAGADASSSEIAIAVPAHWKPGAVHALRNGLRTHVGFVRSGMAPRLVSDAIAALTAVNSELGLPHGGVVGLLDFGGSATYVTLVETKSDSRTSDFQPVSATARYQDFSGSQIDQALLLRVIDQFGYGDDVDPASTAAVGQLGQLREQCRAAKERLSTDVATELFAELAGCSSSIEMTREQLEDLIQDPLTGFIYAFDDMLARHNASWADLAAVVTVGGGANIPLVTQRLSFHTRRPVLTASQPGCAAAMGALLLANRGGERDSRTRTSIGLATAAAAGTSVIELPAGDVMVIDHEALTDRELAWSQTDFPSEAPARFEGDSYNEGGPCWSMRLNAVEPPKGPAWRRIRVSQLLIGVSAVVAMTAIGGVALTLTAIERRPSPLPTPIVPGLAPMPPGSVVPSSRAPTPPPPPSTVAPLPSAAPAPTTVAPAPPPPTQVVTTTTAPPVTTTPRPSPTTTTTTAPPSTTTTTEPPVTTTSTIPTIPTTTTTVKMTTEWLHVPFLPVPIPVPIPQNPGAGEPQNPFGSLGSG