fabD Resolved · high auto-curated
H37Rv Rv2243 · MTBC0 mtbc0_002385 ·
302 aa · 2542945–2543853 (+) ·
RefSeq NP_216759.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | malonyl CoA-acyl carrier protein transacylase |
|---|---|
| MTBC0 PGAP re-annotation | malonyl CoA-acyl carrier protein transacylase |
| Revised (this work) | Malonyl CoA-acyl carrier protein transacylase. Pfam: Acyl_transf_1 (PF00698.27). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WNG5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Malonyl CoA-acyl carrier protein transacylase |
| EC (curated) |
EC 2.3.1.39
|
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
I Lipid transport and metabolism
|
|---|---|
| Preferred name | fabD |
| eggNOG description | malonyltransferase activity |
| Orthologous group | COG0331 |
| EC number |
EC 2.3.1.39
|
| KEGG orthology |
K00645
|
| KEGG pathways |
map00061, map00333, map01100, map01130, map01212
|
| KEGG modules |
M00082
|
| Gene Ontology (44) |
GO:0003674, GO:0003824, GO:0004312, GO:0004314, GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005835, GO:0006082, GO:0006629 +32 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 | 0.316 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 5 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 |
|---|---|---|---|---|
Acyl_transf_1 | PF00698.27 | 2.2e-23 | 7–283 | Acyl transferase domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: kasA (3-oxoacyl-ACP synthase 1), high confidence from genomic context alone (score 997 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2245 kasA |
3-oxoacyl-ACP synthase 1 | 999 | 997 ctx | neighborhood:788 cooccurence:769 coexpression:934 textmining:947 |
Rv2246 kasB |
3-oxoacyl-ACP synthase 2 | 999 | 997 ctx | neighborhood:758 cooccurence:769 coexpression:941 textmining:930 |
Rv1527c pks5 |
polyketide synthase | 997 | 996 | coexpression:754 experimental:960 database:549 |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 996 | 996 | coexpression:752 experimental:960 database:549 |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 996 | 996 | coexpression:750 experimental:960 database:549 |
Rv2048c pks12 |
polyketide synthase | 996 | 996 | coexpression:752 experimental:960 database:549 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 996 | 996 | coexpression:750 experimental:960 database:549 |
Rv2247 accD6 |
acetyl-/propionyl-CoA carboxylase subunit beta | 998 | 994 ctx | neighborhood:732 coexpression:783 database:900 textmining:769 |
Rv2244 acpM |
meromycolate extension acyl carrier protein | 998 | 978 ctx | neighborhood:788 cooccurence:413 coexpression:438 experimental:422 database:549 textmining:921 |
Rv3800c pks13 |
polyketide synthase | 987 | 976 | coexpression:677 experimental:787 database:549 textmining:524 |
Rv2524c fas |
fatty acid synthase | 993 | 972 | coexpression:653 database:900 textmining:780 |
Rv2946c pks1 |
polyketide synthase | 978 | 970 | coexpression:671 experimental:787 database:549 |
Rv2932 ppsB |
phthiocerol synthesis polyketide synthase type I PpsB | 976 | 969 | coexpression:671 experimental:787 database:549 |
Rv3285 accA3 |
bifunctional protein acetyl-/propionyl-CoA carboxylase subunit alpha AccA | 972 | 965 | coexpression:459 database:900 |
Rv1663 pks17 |
polyketide synthase | 968 | 965 | coexpression:645 experimental:787 database:549 |
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: malonyl CoA-acyl carrier protein transacylase
- MTBC0 PGAP product: malonyl CoA-acyl carrier protein transacylase
- Pfam (hmmscan --cut_ga): Acyl_transf_1 PF00698.27 (E=2e-23)
- (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_216759.1)
- Domains: Pfam-A via hmmscan --cut_ga — Acyl_transf_1 (PF00698.27)
- 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
COG0331 - Curated reference: UniProt P9WNG5 (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 —
139 functional partner(s); context anchor
kasA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002385|Rv2243|fabD MIALLAPGQGSQTEGMLSPWLQLPGAADQIAAWSKAADLDLARLGTTASTEEITDTAVAQPLIVAATLLAHQELARRCVLAGKDVIVAGHSVGEIAAYAIAGVIAADDAVALAATRGAEMAKACATEPTGMSAVLGGDETEVLSRLEQLDLVPANRNAAGQIVAAGRLTALEKLAEDPPAKARVRALGVAGAFHTEFMAPALDGFAAAAANIATADPTATLLSNRDGKPVTSAAAAMDTLVSQLTQPVRWDLCTATLREHTVTAIVEFPPAGTLSGIAKRELRGVPARAVKSPADLDELANL