Rv2325c Family assigned · medium auto-curated
H37Rv Rv2325c · MTBC0 mtbc0_002473 ·
282 aa · 2621758–2622606 (-) ·
RefSeq NP_216841.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | CbiQ family ECF transporter T component |
| Revised (this work) | CbiQ family ECF transporter T component. Pfam: CbiQ (PF02361.22). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WPI7
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv2325c |
UniProt still lists this protein as Uncharacterized protein Rv2325c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| eggNOG description | cobalt transport |
| Orthologous group | COG0619 |
| KEGG orthology |
K16785
|
| KEGG pathways |
map02010
|
| KEGG modules |
M00582
|
| Gene Ontology (8) |
GO:0005575, GO:0005623, GO:0005886, GO:0008150, GO:0016020, GO:0040007, GO:0044464, GO:0071944
|
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 | 0.392 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 3 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 |
|---|---|---|---|---|
CbiQ | PF02361.22 | 1.1e-47 | 28–245 | Cobalt transport protein |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv2326c (ABC transporter ATP-binding protein), high confidence from genomic context alone (score 999 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) |
|---|---|---|---|---|
Rv2326c |
ABC transporter ATP-binding protein | 999 | 999 ctx | neighborhood:882 cooccurence:731 coexpression:901 experimental:652 |
Rv2327 hyp |
hypothetical protein | 797 | 798 ctx | neighborhood:789 |
Rv3663c dppD |
dipeptide ABC transporter ATP-binding protein DppD | 815 | 792 | experimental:652 |
Rv3256c hyp |
hypothetical protein | 738 | 739 | coexpression:734 |
Rv1634 |
multidrug-efflux transporter | 733 | 733 | coexpression:733 |
Rv1125 hyp |
hypothetical protein | 673 | 674 ctx | cooccurence:661 |
Rv2066 cobIJ |
bifunctional S-adenosyl-L-methionine-precorrin-2 methyl transferase/precorrin-3 methylase | 733 | 631 | coexpression:422 |
Rv3455c truA |
tRNA pseudouridine synthase A | 653 | 596 | coexpression:563 |
Rv3076 hyp |
hypothetical protein | 544 | 544 ctx | neighborhood:544 |
Rv1610 |
membrane protein | 530 | 531 ctx | cooccurence:509 |
Rv3707c hyp |
hypothetical protein | 485 | 485 ctx | cooccurence:478 |
Rv2207 cobT |
nicotinate-nucleotide-dimethylbenzimidazol phosphoribosyltransferase | 511 | 463 | coexpression:419 |
Rv0733 adk |
adenylate kinase | 553 | 449 | coexpression:404 |
Rv0668 rpoC |
DNA-directed RNA polymerase subunit beta' | 420 | 420 | |
Rv1901 cinA |
competence damage-inducible protein CinA | 416 | 417 |
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: CbiQ family ECF transporter T component
- Pfam (hmmscan --cut_ga): CbiQ PF02361.22 (E=1e-47)
- (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_216841.1)
- Domains: Pfam-A via hmmscan --cut_ga — CbiQ (PF02361.22)
- 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
COG0619 - Curated reference: UniProt P9WPI7 (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 —
36 functional partner(s); context anchor
Rv2326c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002473|Rv2325c| MTTTSAPARNGTRRPSRPIVLLIPVPGSSVIHDLWAGTKLLVVFGISVLLTFYPGWVTIGMMAALVLAAARIAHIPRGALPSVPRWLWIVLAIGFLTAALAGGTPVVAVGGVQLGLGGALHFLRITALSVVLLALGAMVSWTTNVAEISPAVATLGRPFRVLRIPVDEWAVALALALRAFPMLIDEFQVLYAARRLRPKRMPPSRKARRQRHARELIDLLAAAITVTLRRADEMGDAITARGGTGQLSAHPGRPKLADWVTLAITAMASGTAVAIESLILHS