fadD31 Resolved · high auto-curated
H37Rv Rv1925 · MTBC0 mtbc0_002039 ·
620 aa · 2196203–2198065 (+) ·
RefSeq NP_216441.2
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | fatty-acid--CoA ligase FadD31 |
|---|---|
| MTBC0 PGAP re-annotation | fatty-acid--AMP ligase FAAL31/FadD31 |
| Revised (this work) | Fatty-acid--AMP ligase FAAL31/FadD31. Pfam: AMP-binding (PF00501.35). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6Y7V6
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Acyl-AMP synthetase |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
I Lipid transport and metabolismQ Secondary metabolites biosynthesis, transport and catabolism
|
|---|---|
| Preferred name | fadD31 |
| eggNOG description | Fatty-acid--CoA ligase |
| Orthologous group | COG0318 |
| EC number |
EC 2.7.7.95, EC 6.2.1.51
|
| KEGG orthology |
K00666, K12423, K12425, K12426, K12427, K12428, K21059
|
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 | 0.294 · 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 |
|---|---|---|---|---|
AMP-binding | PF00501.35 | 1.9e-45 | 68–448 | AMP-binding enzyme |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: mbtE (peptide synthetase), high confidence from genomic context alone (score 925 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2380c mbtE |
peptide synthetase | 928 | 925 ctx | fusion:584 cooccurence:605 experimental:465 |
Rv2379c mbtF |
peptide synthetase | 796 | 795 ctx | cooccurence:570 |
Rv3800c pks13 |
polyketide synthase | 799 | 779 ctx | cooccurence:404 |
Rv0101 nrp |
peptide synthetase Nrp | 762 | 750 ctx | cooccurence:600 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 765 | 745 | |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 762 | 742 | |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 761 | 741 | |
Rv1527c pks5 |
polyketide synthase | 757 | 737 | |
Rv0405 pks6 |
membrane bound polyketide synthase | 746 | 734 | |
Rv2932 ppsB |
phthiocerol synthesis polyketide synthase type I PpsB | 736 | 721 | |
Rv2931 ppsA |
phthiocerol synthesis polyketide synthase type I PpsA | 726 | 715 | |
Rv0719 rplF |
50S ribosomal protein L6 | 698 | 699 | experimental:402 database:510 |
Rv1180 pks3 |
polyketide beta-ketoacyl synthase | 685 | 686 | |
Rv2048c pks12 |
polyketide synthase | 705 | 680 | |
Rv2382c mbtC |
polyketide synthetase | 690 | 679 |
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: fatty-acid--CoA ligase FadD31
- MTBC0 PGAP product: fatty-acid--AMP ligase FAAL31/FadD31
- Pfam (hmmscan --cut_ga): AMP-binding PF00501.35 (E=2e-45)
- (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_216441.2)
- Domains: Pfam-A via hmmscan --cut_ga — AMP-binding (PF00501.35)
- 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
COG0318 - Curated reference: UniProt I6Y7V6 (TrEMBL, unreviewed; 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 —
81 functional partner(s); context anchor
mbtE - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002039|Rv1925|fadD31 MNDGSRQELRVRSGLLQIEDCLDADGGIALPAGTTLISLIERNIKYVGDLVAYRYLDHARSAAGCALEVTWTQFGMRLAAIGAHVQRFAGPGDRVAILAPQGIDYVCGFYAAIKAGTVAVPLFAPELPGHAERLDTALRDSEPAVILTTAAAKNAVEGFLNNVPRLRKPTVLVIDQIPDREGELFVPVELDIDAVSHLQYTSGSTRPPVGVEITHRAVGTNLVQMILSIDLLNRNTHGVSWLPLYHDMGLSMIGFPAVYGGHSTLMSPTAFVRRPLRWIQALSEGSRTGRVVTAAPNFAYEWAAQRGLPAQGDDVDLSNVVLIIGSEPVSIDAVTTFNKAFAPYGLPRTAFKPSYGIAEATLLVATIDHAAEPTVVYLDPEQLGAGHATRVAPDAPNAVVHVSCGHVARSLWAVIVDPDTGPEAGAELPDGEIGEVWLQGDNVARGYWGRPEETRMTFGARLQSPLAEGSHADGSAIDDTWLRTGDLGVYLDGELYITGRIADLLTIDGRNHYPQDIEATAAEASPMVRRGYITAFTVPASDGDDRNQRLVIIAERAAGTSRSDPRPALDAIRAAVCNRHGLSVADLSFLPAGAIPRTTSGKLARQACRAQYLSGRLGVH