bacA Family assigned · medium auto-curated
H37Rv Rv1819c · MTBC0 mtbc0_001933 ·
639 aa · 2080897–2082816 (-) ·
RefSeq NP_216335.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | vitamin B12 transport ATP-binding protein BacA |
|---|---|
| MTBC0 PGAP re-annotation | vitamin B12 ABC transporter ATP-binding protein BacA |
| Revised (this work) | Vitamin B12 ABC transporter ATP-binding protein BacA. Pfam: ABC_membrane_2 (PF06472.21), SbmA_BacA (PF05992.18), ABC_tran (PF00005.34). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WQI9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Hydrophilic compounds import ATP-binding/permease protein BacA |
| EC (curated) |
EC 7.6.2.-
|
| Curated function | Multi-solute ABC transporter that mediates uptake of unrelated hydrophilic compounds. Can transport vitamin B12 and related corrinoids, and antimicrobial peptides such as bleomycin. Transmembrane domains (TMD) form a pore in the membrane and the ATP-binding domain (NBD) is responsible for energy generation. Contributes to maintenance of chronic infections. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | bacA |
| eggNOG description | ABC transporter |
| Orthologous group | COG4178 |
| KEGG orthology |
K02471
|
| KEGG pathways |
map02010
|
| Gene Ontology (28) |
GO:0005575, GO:0005576, GO:0005623, GO:0005886, GO:0005887, GO:0008150, GO:0009605, GO:0009607, GO:0016020, GO:0016021, GO:0031224, GO:0031226 +16 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 | 0.146 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 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 |
|---|---|---|---|---|
ABC_membrane_2 | PF06472.21 | 3.6e-79 | 54–358 | ABC transporter transmembrane region 2 |
SbmA_BacA | PF05992.18 | 5.1e-25 | 67–398 | SbmA/BacA-like family |
ABC_tran | PF00005.34 | 4.9e-16 | 444–579 | ABC transporter |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: ilvG (acetolactate synthase large subunit IlvG), high confidence from genomic context alone (score 786 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1820 ilvG |
acetolactate synthase large subunit IlvG | 790 | 786 ctx | neighborhood:785 |
Rv0435c |
ATPase | 690 | 673 | database:617 |
Rv1822 pgsA2 |
CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase | 653 | 653 ctx | neighborhood:652 |
Rv1823 hyp |
hypothetical protein | 651 | 652 ctx | neighborhood:650 |
Rv1488 hyp |
hypothetical protein | 633 | 625 | database:581 |
Rv3090 hyp |
hypothetical protein | 632 | 623 | database:581 |
Rv3884c eccA2 |
ESX-2 secretion system protein EccA | 641 | 621 | database:617 |
Rv0654 |
carotenoid cleavage oxygenase | 619 | 620 | database:563 |
Rv3868 eccA1 |
ESX-1 secretion system protein EccA1 | 639 | 619 | database:617 |
Rv0282 eccA3 |
ESX-3 secretion system protein EccA | 638 | 618 | database:617 |
Rv2737c recA |
recombinase A | 616 | 615 | experimental:608 |
Rv1825 hyp |
hypothetical protein | 601 | 602 ctx | neighborhood:599 |
Rv3293 pcd |
piperideine-6-carboxylic acid dehydrogenase | 598 | 586 | database:581 |
Rv0768 aldA |
aldehyde dehydrogenase AldA | 598 | 586 | database:581 |
Rv1731 gabD2 |
succinate-semialdehyde dehydrogenase | 598 | 586 | database:581 |
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: vitamin B12 transport ATP-binding protein BacA
- MTBC0 PGAP product: vitamin B12 ABC transporter ATP-binding protein BacA
- Pfam (hmmscan --cut_ga): ABC_membrane_2 PF06472.21 (E=4e-79), SbmA_BacA PF05992.18 (E=5e-25), ABC_tran PF00005.34 (E=5e-16)
- (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_216335.1)
- Domains: Pfam-A via hmmscan --cut_ga — ABC_membrane_2 (PF06472.21), SbmA_BacA (PF05992.18), ABC_tran (PF00005.34)
- 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
COG4178 - Curated reference: UniProt P9WQI9 (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 —
52 functional partner(s); context anchor
ilvG - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001933|Rv1819c|bacA MGPKLFKPSIDWSRAFPDSVYWVGKAWTISAICVLAILVLLRYLTPWGRQFWRITRAYFVGPNSVRVWLMLGVLLLSVVLAVRLNVLFSYQGNDMYTALQKAFEGIASGDGTVKRSGVRGFWMSIGVFSVMAVLHVTRVMADIYLTQRFIIAWRVWLTHHLTQDWLDGRAYYRDLFIDETIDNPDQRIQQDVDIFTAGAGGTPNAPSNGTASTLLFGAVQSIISVISFTAILWNLSGTLNIFGVSIPRAMFWTVLVYVFVATVISFIIGRPLIWLSFRNEKLNAAFRYALVRLRDAAEAVGFYRGERVEGTQLQRRFTPVIDNYRRYVRRSIAFNGWNLSVSQTIVPLPWVIQAPRLFAGQIDFGDVGQTATSFGNIHDSLSFFRNNYDAFASFRAAIIRLHGLVDANEKGRALPAVLTRPSDDESVELNDIEVRTPAGDRLIDPLDVRLDRGGSLVITGRSGAGKTTLLRSLAELWPYASGTLHRPGGENETMFLSQLPYVPLGTLRDVVCYPNSAAAIPDATLRDTLTKVALAPLCDRLDEERDWAKVLSPGEQQRVAFARILLTKPKAVFLDESTSALDTGLEFALYQLLRSELPDCIVVSVSHRPALERLHENQLELLGGGQWRLAPVEAAPAEV