aceE Resolved · high auto-curated
H37Rv Rv2241 · MTBC0 - ·
901 aa · 2512539–2515244 (+) ·
RefSeq NP_216757.3
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | pyruvate dehydrogenase E1 component |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Pyruvate dehydrogenase E1 component. Pfam: PDH_E1_N (PF28598.1), Transketolase_N (PF00456.27), PDH_E1_M (PF17831.6), Transketolase_C_1 (PF22613.2). |
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 |
P9WIS9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Pyruvate dehydrogenase E1 component |
| EC (curated) |
EC 1.2.4.1
|
| Curated function | Component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2). AceE has reductase activity with pyruvate but does not react with 2-oxoglutarate. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
C Energy production and conversion
|
|---|---|
| Preferred name | aceE |
| eggNOG description | Component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2) |
| Orthologous group | COG2609 |
| EC number |
EC 1.2.4.1
|
| KEGG orthology |
K00163
|
| KEGG pathways |
map00010, map00020, map00620, map01100, map01110, map01120, map01130, map01200
|
| KEGG modules |
M00307
|
| Gene Ontology (32) |
GO:0000287, GO:0003674, GO:0003824, GO:0004738, GO:0004739, GO:0005488, GO:0005575, GO:0005576, GO:0005618, GO:0005622, GO:0005623, GO:0005737 +20 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 | 0.192 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 10 synonymous, 6 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 |
|---|---|---|---|---|
PDH_E1_N | PF28598.1 | 6.0e-18 | 9–51 | Pyruvate dehydrogenase E1 component, N-terminal domain |
Transketolase_N | PF00456.27 | 7.0e-10 | 136–302 | Transketolase, thiamine diphosphate binding domain |
PDH_E1_M | PF17831.6 | 7.5e-78 | 485–704 | Pyruvate dehydrogenase E1 component middle domain |
Transketolase_C_1 | PF22613.2 | 5.5e-19 | 718–850 | Transketolase-like TK C-terminal domain |
Functional interaction network (STRING v12, guilt-by-association)
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2215 dlaT |
pyruvate dehydrogenase E2 component dihydrolipoamide acyltransferase | 997 | 986 | coexpression:682 experimental:439 database:900 textmining:842 |
Rv2495c bkdC |
branched-chain keto acid dehydrogenase E2 component | 984 | 978 | coexpression:629 experimental:439 database:900 |
Rv1248c kgd |
multifunctional 2-oxoglutarate dehydrogenase E1 component /2-oxoglutarate dehydrogenase dihydrolipoyllysine-residue succinyltransferase | 980 | 952 | coexpression:629 experimental:439 database:720 textmining:603 |
Rv0462 lpdC |
dihydrolipoamide dehydrogenase | 986 | 945 | coexpression:436 database:900 textmining:764 |
Rv1617 pykA |
pyruvate kinase | 958 | 923 | database:900 textmining:481 |
Rv2332 mez |
malate oxidoreductase | 937 | 907 | database:900 |
Rv2497c bkdA |
3-methyl-2-oxobutanoate dehydrogenase subunit alpha | 970 | 904 | database:900 textmining:703 |
Rv2455c korA |
2-oxoglutarate oxidoreductase subunit KorA | 941 | 902 | database:900 textmining:429 |
Rv2967c pca |
pyruvate carboxylase | 930 | 902 | database:900 |
Rv2496c bkdB |
3-methyl-2-oxobutanoate dehydrogenase subunit beta | 929 | 901 | database:900 |
Rv2454c korB |
2-oxoglutarate oxidoreductase subunit KorB | 926 | 901 | database:900 |
Rv1127c ppdK |
pyruvate, phosphate dikinase PpdK | 911 | 901 | database:900 |
Rv0694 mftD |
mycofactocin system heme/flavin oxidoreductase MftD | 910 | 901 | database:900 |
Rv1872c lldD2 |
L-lactate dehydrogenase | 910 | 901 | database:900 |
Rv0363c fba |
fructose-bisphosphate aldolase | 877 | 826 | database:800 |
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): pyruvate dehydrogenase E1 component
- Pfam (hmmscan --cut_ga): PDH_E1_N PF28598.1 (E=6e-18), Transketolase_N PF00456.27 (E=7e-10), PDH_E1_M PF17831.6 (E=8e-78), Transketolase_C_1 PF22613.2 (E=5e-19)
- (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_216757.3)
- Domains: Pfam-A via hmmscan --cut_ga — PDH_E1_N (PF28598.1), Transketolase_N (PF00456.27), PDH_E1_M (PF17831.6), Transketolase_C_1 (PF22613.2)
- 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
COG2609 - Curated reference: UniProt P9WIS9 (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 — 69 functional partner(s)
- Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv2241|aceE MASYLPDIDPEETSEWLESFDTLLQRCGPSRARYLMLRLLERAGEQRVAIPALTSTDYVNTIPTELEPWFPGDEDVERRYRAWIRWNAAIMVHRAQRPGVGVGGHISTYASSAALYEVGFNHFFRGKSHPGGGDQVFIQGHASPGIYARAFLEGRLTAEQLDGFRQEHSHVGGGLPSYPHPRLMPDFWEFPTVSMGLGPLNAIYQARFNHYLHDRGIKDTSDQHVWCFLGDGEMDEPESRGLAHVGALEGLDNLTFVINCNLQRLDGPVRGNGKIIQELESFFRGAGWNVIKVVWGREWDALLHADRDGALVNLMNTTPDGDYQTYKANDGGYVRDHFFGRDPRTKALVENMSDQDIWNLKRGGHDYRKVYAAYRAAVDHKGQPTVILAKTIKGYALGKHFEGRNATHQMKKLTLEDLKEFRDTQRIPVSDAQLEENPYLPPYYHPGLNAPEIRYMLDRRRALGGFVPERRTKSKALTLPGRDIYAPLKKGSGHQEVATTMATVRTFKEVLRDKQIGPRIVPIIPDEARTFGMDSWFPSLKIYNRNGQLYTAVDADLMLAYKESEVGQILHEGINEAGSVGSFIAAGTSYATHNEPMIPIYIFYSMFGFQRTGDSFWAAADQMARGFVLGATAGRTTLTGEGLQHADGHSLLLAATNPAVVAYDPAFAYEIAYIVESGLARMCGENPENIFFYITVYNEPYVQPPEPENFDPEGVLRGIYRYHAATEQRTNKAQILASGVAMPAALRAAQMLAAEWDVAADVWSVTSWGELNRDGVAIETEKLRHPDRPAGVPYVTRALENARGPVIAVSDWMRAVPEQIRPWVPGTYLTLGTDGFGFSDTRPAARRYFNTDAESQVVAVLEALAGDGEIDPSVPVAAARQYRIDDVAAAPEQTTDPGPGA