Rv2191 Family assigned · medium auto-curated
H37Rv Rv2191 · MTBC0 - ·
645 aa · 2453819–2455756 (+) ·
RefSeq NP_216707.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Contains RNase_T (PF00929.32), UvrC_M (PF27096.1) 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 |
P9WLJ1
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Putative bifunctional exonuclease/endonuclease protein Rv2191 |
| EC (curated) |
EC 3.1.-.-
|
UniProt still lists this protein as Putative bifunctional exonuclease/endonuclease protein Rv2191; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
L Replication, recombination and repair
|
|---|---|
| Preferred name | dnaQ |
| eggNOG description | DNA polymerase III, epsilon subunit |
| Orthologous group | COG0322 |
| EC number |
EC 2.7.7.7
|
| KEGG orthology |
K02342
|
| KEGG pathways |
map00230, map00240, map01100, map03030, map03430, map03440
|
| KEGG modules |
M00260
|
| Gene Ontology (26) |
GO:0005575, GO:0005618, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0006950, GO:0006974, GO:0008150, GO:0009380, GO:0009987 +14 more
|
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 | 1.495 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 12 missense, 0 nonsense, 2 frameshift |
| Disruption | 2 distinct premature-stop/frameshift site(s); most common in 1.00% of strains (1445) · 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 |
|---|---|---|---|---|
RNase_T | PF00929.32 | 6.9e-38 | 44–207 | Exonuclease |
UvrC_M | PF27096.1 | 1.2e-08 | 335–425 | UvrC/Cho excinuclease, middle domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: polA (DNA polymerase I), high confidence from genomic context alone (score 740 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) |
|---|---|---|---|---|
Rv1633 uvrB |
excinuclease ABC subunit UvrB | 977 | 967 | coexpression:670 experimental:772 |
Rv3644c |
DNA polymerase | 971 | 961 | experimental:474 database:900 |
Rv0002 dnaN |
DNA polymerase III subunit beta | 967 | 954 | experimental:481 database:900 |
Rv1547 dnaE1 |
DNA polymerase III subunit alpha | 976 | 953 | experimental:510 database:900 textmining:515 |
Rv3721c dnaZX |
DNA polymerase III subunit gamma/tau | 963 | 949 | experimental:474 database:900 |
Rv2413c hyp |
hypothetical protein | 966 | 944 | experimental:442 database:900 textmining:413 |
Rv3711c dnaQ |
DNA polymerase III subunit epsilon | 932 | 902 | database:900 |
Rv3202c adnA |
ATP-dependent DNA helicase | 885 | 841 | coexpression:810 |
Rv3297 nei |
endonuclease VIII | 834 | 803 | coexpression:797 |
Rv3296 lhr |
ATP-dependent helicase | 767 | 750 | coexpression:735 |
Rv3585 radA |
DNA repair protein RadA | 812 | 741 | coexpression:734 |
Rv1629 polA |
DNA polymerase I | 927 | 740 ctx | neighborhood:544 textmining:733 |
Rv3555c hyp |
hypothetical protein | 730 | 731 | coexpression:730 |
Rv0651 rplJ |
50S ribosomal protein L10 | 732 | 723 | database:588 |
Rv0722 rpmD |
50S ribosomal protein L30 | 728 | 717 | database:583 |
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): RNase_T PF00929.32 (E=7e-38), UvrC_M PF27096.1 (E=1e-08)
- (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_216707.1)
- Domains: Pfam-A via hmmscan --cut_ga — RNase_T (PF00929.32), UvrC_M (PF27096.1)
- 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
COG0322 - Curated reference: UniProt P9WLJ1 (SwissProt, reviewed; 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 —
123 functional partner(s); context anchor
polA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv2191| MQGPNVAAMGATGGTQLSFADLAHAQGAAWTPADEMSLRETTFVVVDLETTGGRTTGNDATPPDAITEIGAVKVCGGAVLGEFATLVNPQHSIPPQIVRLTGITTAMVGNAPTIDAVLPMFFEFAGDSVLVAHNAGFDIGFLRAAARRCDITWPQPQVLCTMRLARRVLSRDEAPSVRLAALARLFAVASNPTHRALDDARATVDVLHALIERVGNQGVHTYAELRSYLPNVTQAQRCKRVLAETLPHRPGVYLFRGPSGEVLYVGTAADLRRRVSQYFNGTDRRKRMTEMVMLASSIDHVECAHPLEAGVRELRMLSTHAPPYNRRSKFPYRWWWVALTDEAFPRLSVIRAPRHDRVVGPFRSRSKAAETAALLARCTGLRTCTTRLTRSARHGPACPELEVSACPAARDVTAAQYAEAVLRAAALIGGLDNAALAAAVQQVTELAERRRYESAARLRDHLATAIEALWHGQRLRALAALPELIAAKPDGPREGGYQLAVIRHGQLAAAGRAPRGVPPMPVVDAIRRGAQAILPTPAPLGGALVEEIALIARWLAEPGVRIVGVSNDAAGLASPVRSAGPWAAWAATARSAQLAGEQLSRGWQSDLPTEPHPSREQLFGRTGVDCRTGPPQPLLPGRQPFSTAG