Rv2264c Family assigned · medium auto-curated
H37Rv Rv2264c · MTBC0 mtbc0_002406 ·
592 aa · 2562677–2564455 (-) ·
RefSeq NP_216780.1
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 |
O53538
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Conserved hypothetical proline 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 | 0.394 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 6 missense, 0 nonsense, 8 frameshift |
| Disruption | 8 distinct premature-stop/frameshift site(s); most common in 23.96% of strains (34798) · convergent |
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 | 1.6e-17 | 150–364 | Hsp70 protein |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: iniA (isoniazid inductible protein IniA), high confidence from genomic context alone (score 786 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:703 experimental:773 |
Rv2373c dnaJ2 |
chaperone protein DnaJ | 942 | 934 | coexpression:630 experimental:476 database:601 |
Rv0352 dnaJ1 |
chaperone protein DnaJ | 939 | 929 | coexpression:628 experimental:476 database:601 |
Rv3417c groEL1 |
chaperonin GroEL | 853 | 829 | coexpression:629 experimental:410 |
Rv0440 groEL2 |
molecular chaperone GroEL | 850 | 826 | coexpression:629 experimental:410 |
Rv0384c clpB |
chaperone protein ClpB | 833 | 809 | coexpression:616 experimental:508 |
Rv2667 clpC2 |
ATP-dependent protease ATP-binding subunit ClpC | 833 | 809 | coexpression:615 experimental:508 |
Rv3596c clpC1 |
ATP-dependent protease ATP-binding subunit ClpC | 832 | 808 | coexpression:614 experimental:508 |
Rv0342 iniA |
isoniazid inductible protein IniA | 798 | 786 ctx | cooccurence:587 database:411 |
Rv3529c hyp |
hypothetical protein | 783 | 772 | experimental:455 database:567 |
Rv2267c stf3 hyp |
hypothetical protein | 782 | 770 | experimental:455 database:567 |
Rv1691 hyp |
hypothetical protein | 781 | 769 | experimental:455 database:567 |
Rv0708 rplP |
50S ribosomal protein L16 | 780 | 760 | experimental:749 |
Rv3418c groES |
chaperonin GroES | 824 | 759 | coexpression:671 |
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=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_216780.1)
- 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 O53538 (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 —
175 functional partner(s); context anchor
iniA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002406|Rv2264c| MATGARPALGLSIGVTNLAAVAADHSITRKPVLTLYRQRPPEVGVPSENPRLDEPGLVITDFVDRVGDSVGIVAADGSVYRSEALVADALLALAYTATGGRALPGSVTVTYPAHWGPAAVAALDSALRRASEWSHGTSSTAQPLSLLPDAAAALYAIRADPGIPARGIVAVCDFGGSGTGITLVDAADEYRPVAATVRHQAFSGDLIDQSLLSYVMSELPGTGAFDPAGTSAIGSLTKLRIECRKAKERLSSSTVTTLTDALGGDIRLTRNELEDTIRDSLDSVGRALEQTLARSGIRTAELVAIVSVGGGANIPAVTTTLSGRFCVPVVRTPRPQLTAAFGGALWAARRPGDTSATVLTAVTSATATAPADAPASVLQPALAWSEADEDSHIGPAPGYTAARPSLSFDHDAHAEPEPKSPPIPWYRLPAVIITGTTVAVLLVGAAVAIGLSTGDQPTAPGTPQRPGVTTTAAPPPSPAPASDGPTTEPAPPVQAPATGGPAPPLQQPLPPPPTTTNTQPAVTTDVITPAPTTPASAPPATTQPPATTQPPATTSPSPPPIPPIPPIPEIPQLPPGIPQVPGIGQFSAISGS