desA2 Resolved · high auto-curated
H37Rv Rv1094 · MTBC0 mtbc0_001177 ·
275 aa · 1230399–1231226 (+) ·
RefSeq NP_215610.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | acyl-ACP desaturase DesA |
|---|---|
| MTBC0 PGAP re-annotation | acyl-ACP desaturase |
| Revised (this work) | Acyl-ACP desaturase. Pfam: FA_desaturase_2 (PF03405.21). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WNZ5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Putative acyl-[acyl-carrier-protein] desaturase DesA2 |
| EC (curated) |
EC 1.14.19.-
|
| Curated function | May be a desaturase involved in mycobacterial fatty acid biosynthesis. |
UniProt still lists this protein as Putative acyl-[acyl-carrier-protein] desaturase DesA2; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
F Nucleotide transport and metabolism
|
|---|---|
| Preferred name | desA2 |
| eggNOG description | PFAM Fatty acid desaturase |
| Orthologous group | COG0208 |
| EC number |
EC 1.14.19.2
|
| KEGG orthology |
K03922
|
| KEGG pathways |
map00061, map01040, map01212
|
| Gene Ontology (20) |
GO:0003674, GO:0005488, GO:0005575, GO:0005618, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0008150, GO:0016020, GO:0030312 +8 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 | 0.469 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 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 |
|---|---|---|---|---|
FA_desaturase_2 | PF03405.21 | 8.2e-32 | 13–264 | Fatty acid desaturase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: glyA1 (serine hydroxymethyltransferase), medium confidence from genomic context alone (score 580 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0824c desA1 |
acyl-ACP desaturase DesA | 989 | 986 | coexpression:843 database:900 |
Rv3230c |
stearoyl-CoA 9-desaturase electron transfer protein | 930 | 927 | database:900 |
Rv3229c desA3 |
stearoyl-CoA 9-desaturase | 987 | 923 | database:900 textmining:838 |
Rv2524c fas |
fatty acid synthase | 931 | 905 | database:900 |
Rv3052c nrdI |
NrdI protein | 846 | 834 | coexpression:440 experimental:707 |
Rv1177 fdxC |
ferredoxin FdxC | 883 | 770 | coexpression:770 textmining:516 |
Rv0823c dusB |
tRNA-dihydrouridine synthase | 874 | 769 | coexpression:755 textmining:479 |
Rv3051c nrdE |
ribonucleoside-diphosphate reductase subunit alpha | 775 | 762 | coexpression:557 experimental:468 |
Rv0570 nrdZ |
vitamin B12-dependent ribonucleoside-diphosphate reductase | 769 | 755 | coexpression:544 experimental:468 |
Rv1093 glyA1 |
serine hydroxymethyltransferase | 601 | 580 ctx | neighborhood:576 |
Rv1095 phoH2 |
phosphate starvation-inducible protein PsiH | 732 | 506 ctx | neighborhood:474 textmining:479 |
Rv0184 hyp |
hypothetical protein | 474 | 475 ctx | cooccurence:467 |
Rv1125 hyp |
hypothetical protein | 467 | 468 | |
Rv0876c |
transmembrane protein | 456 | 457 ctx | cooccurence:450 |
Rv3035 hyp |
hypothetical protein | 428 | 429 ctx | cooccurence:425 |
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: acyl-ACP desaturase DesA
- MTBC0 PGAP product: acyl-ACP desaturase
- Pfam (hmmscan --cut_ga): FA_desaturase_2 PF03405.21 (E=8e-32)
- (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_215610.1)
- Domains: Pfam-A via hmmscan --cut_ga — FA_desaturase_2 (PF03405.21)
- 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
COG0208 - Curated reference: UniProt P9WNZ5 (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 —
31 functional partner(s); context anchor
glyA1 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001177|Rv1094|desA2 MAQKPVADALTLELEPVVEANMTRHLDTEDIWFAHDYVPFDQGENFAFLGGRDWDPSQSTLPRTITDACEILLILKDNLAGHHRELVEHFILEDWWGRWLGRWTAEEHLHAIALREYLVVTREVDPVANEDVRVQHVMKGYRAEKYTQVETLVYMAFYERCGAVFCRNLAAQIEEPILAGLIDRIARDEVRHEEFFANLVTHCLDYTRDETIAAIAARAADLDVLGADIEAYRDKLQNVADAGIFGKPQLRQLISDRITAWGLAGEPSLKQFVTG