wbbL1 Resolved · high auto-curated
H37Rv Rv3265c · MTBC0 - ·
301 aa · 3645979–3646884 (-) ·
RefSeq YP_177952.3
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | N-acetylglucosaminyl-diphospho-decaprenol L-rhamnosyltransferase |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | N-acetylglucosaminyl-diphospho-decaprenol L-rhamnosyltransferase. Pfam: Glycos_transf_2 (PF00535.33), Glyco_tranf_2_3 (PF13641.13), Glyco_trans_2_3 (PF13632.13). |
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 |
P9WMY3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | N-acetylglucosaminyl-diphospho-decaprenol L-rhamnosyltransferase |
| EC (curated) |
EC 2.4.1.289
|
| Curated function | Involved in the biosynthesis of the mycolylarabinogalactan-peptidoglycan (mAGP) complex, an essential component of the mycobacterial cell wall. Catalyzes the transfer of the rhamnosyl moiety from dTDP-rhamnosyl (dTDP-Rha) onto the decaprenyl-pyrophosphoryl-GlcNAc (C50-PP-GlcNAc), yielding rhamnosyl-decaprenyl-pyrophosphoryl-GlcNAc (Rha-C50-PP-GlcNAc). |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | wbbL |
| eggNOG description | PFAM Glycosyl transferase family 2 |
| Orthologous group | COG1216 |
| EC number |
EC 2.4.1.289
|
| KEGG orthology |
K16870
|
| Gene Ontology (35) |
GO:0000271, GO:0003674, GO:0003824, GO:0005575, GO:0005623, GO:0005886, GO:0005975, GO:0005976, GO:0008150, GO:0008152, GO:0009058, GO:0009059 +23 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 | 0.0 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 0 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 |
|---|---|---|---|---|
Glycos_transf_2 | PF00535.33 | 2.6e-11 | 5–190 | Glycosyl transferase family 2 |
Glyco_tranf_2_3 | PF13641.13 | 1.0e-08 | 6–234 | Glycosyltransferase like family 2 |
Glyco_trans_2_3 | PF13632.13 | 2.5e-06 | 172–239 | Glycosyl transferase family group 2 |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: rmlD (dTDP-4-dehydrorhamnose reductase), high confidence from genomic context alone (score 984 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3266c rmlD |
dTDP-4-dehydrorhamnose reductase | 996 | 984 ctx | neighborhood:880 cooccurence:715 database:500 textmining:775 |
Rv3782 glfT1 |
galactofuranosyl transferase GlfT | 962 | 920 | database:900 textmining:550 |
Rv1302 rfe |
decaprenyl-phosphate N-acetylglucosaminephosphotransferase | 989 | 918 | database:900 textmining:877 |
Rv3264c manB |
D-alpha-D-mannose-1-phosphate guanylyltransferase ManB | 895 | 891 ctx | neighborhood:881 |
Rv3267 lcp1 hyp |
hypothetical protein | 919 | 831 ctx | neighborhood:783 textmining:545 |
Rv3465 rmlC |
dTDP-4-dehydrorhamnose 3,5-epimerase | 930 | 806 ctx | cooccurence:712 textmining:659 |
Rv3754 tyrA |
prephenate dehydrogenase TyrA | 770 | 770 | coexpression:770 |
Rv2584c apt |
adenine phosphoribosyltransferase | 769 | 770 | coexpression:766 |
Rv3783 rfbD |
O-antigen/lipopolysaccharide ABC transporter permease RfbD | 900 | 710 ctx | cooccurence:483 textmining:672 |
Rv0334 rmlA |
glucose-1-phosphate thymidylyltransferase | 893 | 665 ctx | cooccurence:525 textmining:696 |
Rv3781 rfbE |
O-antigen/lipopolysaccharide ABC transporter ATP-binding protein RfbE | 880 | 643 ctx | cooccurence:402 textmining:678 |
Rv3311 hyp |
hypothetical protein | 586 | 587 ctx | cooccurence:584 |
Rv3268 hyp |
hypothetical protein | 548 | 548 ctx | neighborhood:534 |
Rv3464 rmlB |
dTDP-glucose 4,6-dehydratase | 903 | 492 | textmining:818 |
Rv3242c hyp |
hypothetical protein | 461 | 462 | coexpression:460 |
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): N-acetylglucosaminyl-diphospho-decaprenol L-rhamnosyltransferase
- Pfam (hmmscan --cut_ga): Glycos_transf_2 PF00535.33 (E=3e-11), Glyco_tranf_2_3 PF13641.13 (E=1e-08), Glyco_trans_2_3 PF13632.13 (E=3e-06)
- (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_177952.3)
- Domains: Pfam-A via hmmscan --cut_ga — Glycos_transf_2 (PF00535.33), Glyco_tranf_2_3 (PF13641.13), Glyco_trans_2_3 (PF13632.13)
- 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
COG1216 - Curated reference: UniProt P9WMY3 (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 —
34 functional partner(s); context anchor
rmlD - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv3265c|wbbL1 MVAVTYSPGPHLERFLASLSLATERPVSVLLADNGSTDGTPQAAVQRYPNVRLLPTGANLGYGTAVNRTIAQLGEMAGDAGEPWVDDWVIVANPDVQWGPGSIDALLDAASRWPRAGALGPLIRDPDGSVYPSARQMPSLIRGGMHAVLGPFWPRNPWTTAYRQERLEPSERPVGWLSGSCLLVRRSAFGQVGGFDERYFMYMEDVDLGDRLGKAGWLSVYVPSAEVLHHKAHSTGRDPASHLAAHHKSTYIFLADRHSGWWRAPLRWTLRGSLALRSHLMVRSSLRRSRRRKLKLVEGRH