Rv3273 Resolved · high auto-curated
H37Rv Rv3273 · MTBC0 - ·
764 aa · 3654637–3656931 (+) ·
RefSeq NP_217790.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transmembrane carbonic anhydrase |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Transmembrane carbonic anhydrase. Pfam: Sulfate_transp (PF00916.27), Pro_CA (PF00484.25). |
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 |
P96878
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | carbonic anhydrase |
| EC (curated) |
EC 4.2.1.1
|
| Curated function | Catalyzes the reversible hydration of carbon dioxide to form bicarbonate. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| Preferred name | st2 |
| eggNOG description | Transporter |
| Orthologous group | COG0288 |
| EC number |
EC 4.2.1.1
|
| KEGG orthology |
K01673, K03321
|
| KEGG pathways |
map00910
|
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 | 0.213 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 12 synonymous, 7 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 |
|---|---|---|---|---|
Sulfate_transp | PF00916.27 | 1.9e-85 | 31–398 | Sulfate permease family |
Pro_CA | PF00484.25 | 2.8e-39 | 580–739 | Carbonic anhydrase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv3271c (integral membrane protein), medium confidence from genomic context alone (score 603 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3588c canB |
carbonic anhydrase | 967 | 918 | database:900 textmining:623 |
Rv1284 canA |
beta-carbonic anhydrase | 970 | 914 | database:900 textmining:675 |
Rv2048c pks12 |
polyketide synthase | 842 | 821 | experimental:772 |
Rv3272 hyp |
hypothetical protein | 820 | 820 ctx | neighborhood:810 |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 816 | 791 | experimental:772 |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 816 | 791 | experimental:772 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 816 | 790 | experimental:772 |
Rv1527c pks5 |
polyketide synthase | 816 | 790 | experimental:772 |
Rv2196 qcrB |
ubiquinol-cytochrome C reductase cytochrome subunit B | 799 | 787 | experimental:774 |
Rv1663 pks17 |
polyketide synthase | 795 | 783 | experimental:772 |
Rv0153c ptbB |
phosphotyrosine protein phosphatase | 760 | 761 | experimental:749 |
Rv3157 nuoM |
NADH-quinone oxidoreductase subunit M | 770 | 700 | experimental:648 |
Rv1277 hyp |
hypothetical protein | 699 | 700 | experimental:681 |
Rv2584c apt |
adenine phosphoribosyltransferase | 666 | 652 | coexpression:640 |
Rv3271c |
integral membrane protein | 619 | 603 ctx | neighborhood:597 |
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): transmembrane carbonic anhydrase
- Pfam (hmmscan --cut_ga): Sulfate_transp PF00916.27 (E=2e-85), Pro_CA PF00484.25 (E=3e-39)
- (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_217790.1)
- Domains: Pfam-A via hmmscan --cut_ga — Sulfate_transp (PF00916.27), Pro_CA (PF00484.25)
- 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
COG0288 - Curated reference: UniProt P96878 (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 —
65 functional partner(s); context anchor
Rv3271c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv3273| MTIPRSQHMSTAVNSCTEAPASRSQWMLANLRHDVPASLVVFLVALPLSLGIAIASGAPIIAGVIAAVVGGIVAGAVGGSPVQVSGPAAGLTVVVAELIDELGWPMLCLMTIAAGALQIVFGLSRMARAALAIAPVVVHAMLAGIGITIALQQIHVLLGGTSHSSAWRNIVALPDGILHHELHEVIVGGTVIAILLMWSKLPAKVRIIPGPLVAIAGATVLALLPVLQTERIDLQGNFFDAIGLPKLAEMSPGGQPWSHEISAIALGVLTIALIASVESLLSAVGVDKLHHGPRTDFNREMVGQGSANVVSGLLGGLPITGVIVRSSANVAAGARTRMSTILHGVWILLFASLFTNLVELIPKAALAGLLIVIGAQLVKLAHIKLAWRTGNFVIYAITIVCVVFLNLLEGVAIGLVVAIVFLLVRVVRAPVEVKPVGGEQSKRWRVDIDGTLSFLLLPRLTTVLSKLPEGSEVTLNLNADYIDDSVSEAISDWRRAHETRGGVVAIVETSPAKLHHAHARPPKRHFASDPIGLVPWRSARGKDRGSASVLDRIDEYHRNGAAVLHPHIAGLTDSQDPYELFLTCADSRILPNVITASGPGDLYTVRNLGNLVPTDPDDRSVDAALDFAVNQLGVSSVVVCGHSSCAAMTALLEDDPANTTTPMMRWLENAHDSLVVFRNHHPARRSAESAGYPEADQLSIVNVAVQVERLTRHPILATAVAAADLQVIGIFFDISTARVYEVGPNGIICPDEPADRPVDHESAQ