plsB2 Resolved · high auto-curated
H37Rv Rv2482c · MTBC0 mtbc0_002642 ·
789 aa · 2809804–2812173 (-) ·
RefSeq NP_216998.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | glycerol-3-phosphate acyltransferase |
|---|---|
| MTBC0 PGAP re-annotation | glycerol-3-phosphate 1-O-acyltransferase |
| Revised (this work) | Glycerol-3-phosphate 1-O-acyltransferase. Pfam: Acyltransferase (PF01553.27), GPAT_C (PF19277.5). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WI61
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Glycerol-3-phosphate acyltransferase |
| EC (curated) |
EC 2.3.1.15
|
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
I Lipid transport and metabolism
|
|---|---|
| Preferred name | plsB |
| eggNOG description | Belongs to the GPAT DAPAT family |
| Orthologous group | COG2937 |
| EC number |
EC 2.3.1.15
|
| KEGG orthology |
K00631
|
| KEGG pathways |
map00561, map00564, map01100, map01110
|
| KEGG modules |
M00089
|
| Gene Ontology (6) |
GO:0005575, GO:0005623, GO:0005886, GO:0016020, GO:0044464, GO:0071944
|
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 | 0.574 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 synonymous, 11 missense, 1 nonsense, 2 frameshift |
| Disruption | 3 distinct premature-stop/frameshift site(s); most common in 0.66% of strains (953) · clonal |
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 |
|---|---|---|---|---|
Acyltransferase | PF01553.27 | 2.1e-15 | 266–378 | Acyltransferase |
GPAT_C | PF19277.5 | 6.4e-65 | 405–741 | Glycerol-3-phosphate acyltransferase C-terminal region |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: plsC (bifunctional L-3-phosphoserine phosphatase/1-acyl-sn-glycerol-3-phosphate acyltransferase), high confidence from genomic context alone (score 991 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2483c plsC |
bifunctional L-3-phosphoserine phosphatase/1-acyl-sn-glycerol-3-phosphate acyltransferase | 996 | 991 ctx | neighborhood:881 cooccurence:753 coexpression:733 textmining:595 |
Rv2484c |
diacyglycerol O-acyltransferase | 988 | 979 ctx | neighborhood:881 cooccurence:723 coexpression:409 textmining:470 |
Rv1551 plsB1 |
acyltransferase PlsB | 926 | 922 | database:900 |
Rv2182c |
1-acylglycerol-3-phosphate O-acyltransferase | 925 | 905 | database:900 |
Rv0564c gpdA1 |
glycerol-3-phosphate dehydrogenase | 927 | 904 | database:900 |
Rv2982c gpdA2 |
glycerol-3-phosphate dehydrogenase | 917 | 904 | database:900 |
Rv3302c glpD2 |
glycerol-3-phosphate dehydrogenase | 930 | 903 | database:900 |
Rv2249c glpD1 |
glycerol-3-phosphate dehydrogenase | 931 | 901 | database:900 |
Rv1692 |
phosphatase | 900 | 901 | database:900 |
Rv3696c glpK |
glycerol kinase | 922 | 900 | database:900 |
Rv0441c hyp |
hypothetical protein | 810 | 802 ctx | cooccurence:523 database:549 |
Rv2481c hyp |
hypothetical protein | 765 | 764 ctx | neighborhood:749 |
Rv1203c hyp |
hypothetical protein | 632 | 632 ctx | cooccurence:630 |
Rv1771 |
L-gulono-1,4-lactone dehydrogenase | 628 | 612 | database:549 |
Rv2280 |
Rv2280, (MTCY339.30c), len: 459 aa. Probable dehydrogenase. Similar to D-lactate dehydrogenase (cytochrome) precursor e.g. G1061264 (587 aa) | 624 | 609 | 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: glycerol-3-phosphate acyltransferase
- MTBC0 PGAP product: glycerol-3-phosphate 1-O-acyltransferase
- Pfam (hmmscan --cut_ga): Acyltransferase PF01553.27 (E=2e-15), GPAT_C PF19277.5 (E=6e-65)
- (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_216998.1)
- Domains: Pfam-A via hmmscan --cut_ga — Acyltransferase (PF01553.27), GPAT_C (PF19277.5)
- 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
COG2937 - Curated reference: UniProt P9WI61 (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 —
78 functional partner(s); context anchor
plsC - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002642|Rv2482c|plsB2 MTKPAADASAVLTAEDTLVLASTATPVEMELIMGWLGQQRARHPDSKFDILKLPPRNAPPAALTALVEQLEPGFASSPQSGEDRSIVPVRVIWLPPADRSRAGKVAALLPGRDPYHPSQRQQRRILRTDPRRARVVAGESAKVSELRQQWRDTTVAEHKRDFAQFVSRRALLALARAEYRILGPQYKSPRLVKPEMLASARFRAGLDRIPGATVEDAGKMLDELSTGWSQVSVDLVSVLGRLASRGFDPEFDYDEYQVAAMRAALEAHPAVLLFSHRSYIDGVVVPVAMQDNRLPPVHMFGGINLSFGLMGPLMRRSGMIFIRRNIGNDPLYKYVLKEYVGYVVEKRFNLSWSIEGTRSRTGKMLPPKLGLMSYVADAYLDGRSDDILLQGVSICFDQLHEITEYAAYARGAEKTPEGLRWLYNFIKAQGERNFGKIYVRFPEAVSMRQYLGAPHGELTQDPAAKRLALQKMSFEVAWRILQATPVTATGLVSALLLTTRGTALTLDQLHHTLQDSLDYLERKQSPVSTSALRLRSREGVRAAADALSNGHPVTRVDSGREPVWYIAPDDEHAAAFYRNSVIHAFLETSIVELALAHAKHAEGDRVAAFWAQAMRLRDLLKFDFYFADSTAFRANIAQEMAWHQDWEDHLGVGGNEIDAMLYAKRPLMSDAMLRVFFEAYEIVADVLRDAPPDIGPEELTELALGLGRQFVAQGRVRSSEPVSTLLFATARQVAVDQELIAPAADLAERRVAFRRELRNILRDFDYVEQIARNQFVAREFKARQGRDRI