ackA Resolved · high auto-curated
H37Rv Rv0409 · MTBC0 mtbc0_000429 ·
385 aa · 497216–498373 (+) ·
RefSeq NP_214923.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | acetate kinase |
|---|---|
| MTBC0 PGAP re-annotation | acetate kinase |
| Revised (this work) | Acetate kinase. Pfam: Acetate_kinase (PF00871.24). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WQH1
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Acetate kinase |
| EC (curated) |
EC 2.7.2.1
|
| Curated function | Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
F Nucleotide transport and metabolism
|
|---|---|
| Preferred name | ackA |
| eggNOG description | Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction |
| Orthologous group | COG0282 |
| EC number |
EC 2.7.2.1
|
| KEGG orthology |
K00925
|
| KEGG pathways |
map00430, map00620, map00640, map00680, map00720, map01100, map01120, map01200
|
| KEGG modules |
M00357, M00579
|
| Gene Ontology (6) |
GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0044424, GO:0044464
|
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 | 0.286 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 synonymous, 4 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 |
|---|---|---|---|---|
Acetate_kinase | PF00871.24 | 4.1e-131 | 5–374 | Acetokinase family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: pta (phosphate acetyltransferase), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0408 pta |
phosphate acetyltransferase | 999 | 1000 ctx | neighborhood:882 cooccurence:769 coexpression:999 database:900 textmining:948 |
Rv3667 acs |
acetyl-CoAsynthetase | 971 | 932 | database:900 textmining:594 |
Rv3293 pcd |
piperideine-6-carboxylic acid dehydrogenase | 929 | 925 | database:900 |
Rv0768 aldA |
aldehyde dehydrogenase AldA | 930 | 922 | database:900 |
Rv0458 |
aldehyde dehydrogenase | 926 | 922 | database:900 |
Rv0223c |
aldehyde dehydrogenase | 926 | 922 | database:900 |
Rv0147 |
aldehyde dehydrogenase | 926 | 922 | database:900 |
Rv0467 icl1 |
isocitrate lyase | 962 | 906 | coexpression:906 textmining:615 |
Rv2922A acyP |
acylphosphatase | 912 | 900 | database:900 |
Rv0407 fgd1 |
F420-dependent glucose-6-phosphate dehydrogenase | 889 | 889 ctx | neighborhood:882 |
Rv1837c glcB |
malate synthase | 890 | 791 | coexpression:791 textmining:500 |
Rv0406c |
beta lactamase-like protein | 786 | 786 ctx | neighborhood:784 |
Rv2524c fas |
fatty acid synthase | 736 | 634 ctx | neighborhood:470 |
Rv1916 aceAb |
isocitrate lyase AceAb | 667 | 631 | coexpression:631 |
Rv1915 aceAa |
isocitrate lyase AceAa | 666 | 630 | coexpression:630 |
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: acetate kinase
- MTBC0 PGAP product: acetate kinase
- Pfam (hmmscan --cut_ga): Acetate_kinase PF00871.24 (E=4e-131)
- (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_214923.1)
- Domains: Pfam-A via hmmscan --cut_ga — Acetate_kinase (PF00871.24)
- 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
COG0282 - Curated reference: UniProt P9WQH1 (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 —
65 functional partner(s); context anchor
pta - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000429|Rv0409|ackA MSSTVLVINSGSSSLKFQLVEPVAGMSRAAGIVERIGERSSPVADHAQALHRAFKMLAEDGIDLQTCGLVAVGHRVVHGGTEFHQPTLLDDTVIGKLEELSALAPLHNPPAVLGIKVARRLLANVAHVAVFDTAFFHDLPPAAATYAIDRDVADRWHIRRYGFHGTSHQYVSERAAAFLGRPLDGLNQIVLHLGNGASASAIARGRPVETSMGLTPLEGLVMGTRSGDLDPGVISYLWRTARMGVEDIESMLNHRSGMLGLAGERDFRRLRLVIETGDRSAQLAYEVFIHRLRKYLGAYLAVLGHTDVVSFTAGIGENDAAVRRDALAGLQGLGIALDQDRNLGPGHGARRISSDDSPIAVLVVPTNEELAIARDCLRVLGGRRA