fabD2 Resolved · medium auto-curated
H37Rv Rv0649 · MTBC0 - ·
224 aa · 746363–747037 (+) ·
RefSeq YP_177744.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | malonyl CoA-acyl carrier protein transacylase |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Malonyl CoA-acyl carrier protein transacylase. |
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 |
Q79FX5
TrEMBL · unreviewed
· Predicted
|
|---|---|
| UniProt name | Possible malonyl CoA-acyl carrier protein transacylase FabD2 |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Preferred name | fabD2 |
|---|---|
| Orthologous group | 2CAP8 |
| EC number |
EC 2.3.1.39
|
| KEGG orthology |
K00645
|
| KEGG pathways |
map00061, map00333, map01100, map01130, map01212
|
| KEGG modules |
M00082
|
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 | 1.219 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 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 |
|---|---|---|---|---|
DUF7158 | PF23716.2 | 5.3e-16 | 24–61 | Family of unknown function (DUF7158) |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0650 (sugar kinase), high confidence from genomic context alone (score 976 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0650 |
sugar kinase | 976 | 976 ctx | neighborhood:881 coexpression:810 |
Rv0648 |
alpha-mannosidase | 959 | 959 ctx | neighborhood:802 coexpression:802 |
Rv2247 accD6 |
acetyl-/propionyl-CoA carboxylase subunit beta | 926 | 901 | database:900 |
Rv2524c fas |
fatty acid synthase | 925 | 901 | database:900 |
Rv3285 accA3 |
bifunctional protein acetyl-/propionyl-CoA carboxylase subunit alpha AccA | 905 | 901 | database:900 |
Rv1350 fabG2 |
3-oxoacyl-ACP reductase FabG | 901 | 901 | database:900 |
Rv3559c |
oxidoreductase | 900 | 901 | database:900 |
Rv3221c TB7.3 |
acetyl-CoA carboxylase biotin carboxyl carrier protein subunit | 900 | 901 | database:900 |
Rv2243 fabD |
malonyl CoA-acyl carrier protein transacylase | 971 | 900 | database:900 textmining:723 |
Rv2501c accA1 |
acetyl/propionyl-CoA carboxylase subuit alpha | 905 | 900 | database:900 |
Rv0242c fabG4 |
3-oxoacyl-ACP reductase FabG | 900 | 900 | database:900 |
Rv0769 |
oxidoreductase | 900 | 900 | database:900 |
Rv0647c hyp |
hypothetical protein | 546 | 546 ctx | neighborhood:546 |
Rv0646c lipG |
lipase/esterase LipG | 537 | 537 ctx | neighborhood:537 |
Rv0651 rplJ |
50S ribosomal protein L10 | 508 | 509 ctx | neighborhood:507 |
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): malonyl CoA-acyl carrier protein transacylase
- Pfam (hmmscan --cut_ga): DUF7158 PF23716.2 (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 YP_177744.1)
- Domains: Pfam-A via hmmscan --cut_ga — DUF7158 (PF23716.2)
- 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
2CAP8 - Curated reference: UniProt Q79FX5 (TrEMBL, unreviewed; Predicted)
- 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 —
24 functional partner(s); context anchor
Rv0650 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv0649|fabD2 MSGRSRLPGSSSRRDAARIVAERVVATVAGVAVAVDEVDAAEARLRDGPRAAALPASGTSEGRQLRRWLTQLIVTERVVAAEAAARGLTAAGAPAEADLLPDATARLEIGSVAAAVLADPLARALFAAVTARVAVTDDAVADYHARNPLRFAAPCPGQHGWRAPAAAAPPLDQVRRAITEHLLGAARRRAFRVWLDARRNALVVLAPGYEHPGDPRQPDNTRRH