pta Resolved · high auto-curated
H37Rv Rv0408 · MTBC0 mtbc0_000428 ·
690 aa · 495151–497223 (+) ·
RefSeq NP_214922.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | phosphate acetyltransferase |
|---|---|
| MTBC0 PGAP re-annotation | phosphate acetyltransferase |
| Revised (this work) | Phosphate acetyltransferase. Pfam: AAA_26 (PF13500.13), DRTGG (PF07085.18), PTA_PTB (PF01515.25). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WHP1
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Phosphate acetyltransferase |
| EC (curated) |
EC 2.3.1.8
|
| Curated function | Involved in acetate metabolism. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
C Energy production and conversion
|
|---|---|
| Preferred name | pta |
| eggNOG description | belongs to the CobB CobQ family |
| Orthologous group | COG0280 |
| EC number |
EC 2.3.1.8
|
| KEGG orthology |
K13788
|
| KEGG pathways |
map00430, map00620, map00640, map00680, map00720, map01100, map01120, map01200
|
| KEGG modules |
M00357, M00579
|
| Gene Ontology (2) |
GO:0005575, GO:0005576
|
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 | 0.42 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 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 |
|---|---|---|---|---|
AAA_26 | PF13500.13 | 3.3e-20 | 6–200 | AAA domain |
DRTGG | PF07085.18 | 1.5e-21 | 207–318 | DRTGG domain |
PTA_PTB | PF01515.25 | 3.5e-137 | 365–682 | Phosphate acetyl/butaryl transferase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: ackA (acetate kinase), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0409 ackA |
acetate kinase | 999 | 1000 ctx | neighborhood:882 cooccurence:769 coexpression:999 database:900 textmining:948 |
Rv1837c glcB |
malate synthase | 986 | 966 | coexpression:666 database:900 textmining:602 |
Rv2455c korA |
2-oxoglutarate oxidoreductase subunit KorA | 987 | 953 ctx | neighborhood:544 database:900 textmining:745 |
Rv2495c bkdC |
branched-chain keto acid dehydrogenase E2 component | 955 | 939 | database:900 |
Rv3667 acs |
acetyl-CoAsynthetase | 964 | 924 | database:900 textmining:554 |
Rv2454c korB |
2-oxoglutarate oxidoreductase subunit KorB | 961 | 924 | database:900 textmining:518 |
Rv0753c mmsA |
methylmalonate-semialdehyde dehydrogenase | 926 | 915 | database:900 |
Rv3221c TB7.3 |
acetyl-CoA carboxylase biotin carboxyl carrier protein subunit | 937 | 912 | database:900 |
Rv2922A acyP |
acylphosphatase | 922 | 911 | database:900 |
Rv1074c fadA3 |
beta-ketoacyl CoA thiolase FadA | 919 | 907 | database:900 |
Rv0914c |
lipid carrier protein or keto acyl-CoA thiolase | 919 | 907 | database:900 |
Rv1323 fadA4 |
acetyl-CoA acetyltransferase | 919 | 907 | database:900 |
Rv3556c fadA6 |
acetyl-CoA acetyltransferase FadA | 918 | 907 | database:900 |
Rv3523 ltp3 |
lipid carrier protein | 918 | 907 | database:900 |
Rv1867 hyp |
hypothetical protein | 918 | 907 | database:900 |
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: phosphate acetyltransferase
- MTBC0 PGAP product: phosphate acetyltransferase
- Pfam (hmmscan --cut_ga): AAA_26 PF13500.13 (E=3e-20), DRTGG PF07085.18 (E=1e-21), PTA_PTB PF01515.25 (E=4e-137)
- (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_214922.1)
- Domains: Pfam-A via hmmscan --cut_ga — AAA_26 (PF13500.13), DRTGG (PF07085.18), PTA_PTB (PF01515.25)
- 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
COG0280 - Curated reference: UniProt P9WHP1 (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 —
183 functional partner(s); context anchor
ackA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000428|Rv0408|pta MADSSAIYLAAPESQTGKSTIALGLLHRLTAMVAKVGVFRPITRLSAERDYILELLLAHTSAGLPYERCVGVTYQQLHADRDDAIAEIVDSYHAMADECDAVVVVGSDYTDVTSPTELSVNARIAVNLGAPVLLTVRAKDRTPDQVASVVEVCLAELDTQRAHTAAVVANRCELSAIPAVTDALRRFTPPSYVVPEEPLLSAPTVAELTQAVNGAVVSGDVALREREVMGVLAAGMTADHVLERLTDGMAVITPGDRSDVVLAVASAHAAEGFPSLSCIVLNGGFQLHPAIAALVSGLRLRLPVIATALGTYDTASAAASARGLVTATSQRKIDTALELMDRHVDVAGLLAQLTIPIPTVTTPQMFTYRLLQQARSDLMRIVLPEGDDDRILKSAGRLLQRGIVDLTILGDEAKVRLRAAELGVDLDGATVIEPCASELHDQFADQYAQLRKAKGITVEHAREIMNDATYFGTMLVHNCHADGMVSGAAHTTAHTVRPALEIIKTVPGISTVSSIFLMCLPDRVLAYGDCAIIPNPTVEQLADIAICSARTAAQFGIEPRVAMLSYSTGDSGKGADVDKVRAATELVRAREPQLPVEGPIQYDAAVEPSVAATKLRDSPVAGRATVLIFPDLNTGNNTYKAVQRSAGAIAIGPVLQGLRKPVNDLSRGALVDDIVNTVAITAIQAQGVHE