aftC Resolved · high auto-curated
H37Rv Rv2673 · MTBC0 mtbc0_002847 ·
433 aa · 3011494–3012795 (+) ·
RefSeq NP_217189.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | alpha-(1->3)-arabinofuranosyltransferase |
|---|---|
| MTBC0 PGAP re-annotation | arabinofuranan 3-O-arabinosyltransferase |
| Revised (this work) | Arabinofuranan 3-O-arabinosyltransferase. Pfam: GT87 (PF09594.17). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WMZ7
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Alpha-(1->3)-arabinofuranosyltransferase |
| EC (curated) |
EC 2.4.2.47
|
| Curated function | Involved in the biosynthesis of the arabinogalactan (AG) region of the mycolylarabinogalactan-peptidoglycan (mAGP) complex, an essential component of the mycobacterial cell wall. Catalyzes the addition of an arabinofuranosyl (Araf) residue from the sugar donor decaprenyl-phospho-arabinose (DPA) on the C-3 of an alpha-(1->5)-linked Araf from the arabinan backbone of AG. It can also use (Z,Z)-farnesylphosphoryl D-arabinose (Z-FPA), and to a lesser extent (E,E,Z,Z,Z,Z)-heptaprenylphosphoryl D-arabinose (Z-HPA) and (Z)-nerylphosphoryl D-arabinose (Z-NPA) as sugar donors. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | aftC |
| eggNOG description | capsule organization |
| Orthologous group | 2F13Q |
| EC number |
EC 2.4.2.47
|
| KEGG orthology |
K16647
|
| Gene Ontology (2) |
GO:0008150, GO:0040007
|
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) | 6 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 |
|---|---|---|---|---|
GT87 | PF09594.17 | 2.9e-45 | 94–328 | Glycosyltransferase family 87 |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: aftD (alpha-(1->3)-arabinofuranosyltransferase), high confidence from genomic context alone (score 956 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0236c aftD |
alpha-(1->3)-arabinofuranosyltransferase | 996 | 956 ctx | cooccurence:580 database:900 textmining:931 |
Rv2672 |
protease | 909 | 909 ctx | neighborhood:849 cooccurence:414 |
Rv3794 embA |
arabinosyltransferase A | 952 | 884 ctx | cooccurence:768 database:500 textmining:604 |
Rv3805c aftB |
terminal beta-(1->2)-arabinofuranosyltransferase | 984 | 882 ctx | cooccurence:771 database:500 textmining:878 |
Rv3795 embB |
arabinosyltransferase B | 947 | 882 ctx | cooccurence:765 database:500 textmining:568 |
Rv2671 ribD |
bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase | 844 | 776 ctx | neighborhood:773 |
Rv1476 |
membrane protein | 776 | 776 ctx | cooccurence:773 |
Rv3802c |
membrane protein | 774 | 774 ctx | cooccurence:774 |
Rv2674 msrB |
peptide methionine sulfoxide reductase MsrB | 768 | 768 ctx | neighborhood:765 |
Rv3793 embC |
arabinosyltransferase C | 919 | 764 ctx | cooccurence:760 textmining:672 |
Rv3668c |
protease | 763 | 764 ctx | cooccurence:763 |
Rv2342 hyp |
hypothetical protein | 757 | 757 ctx | cooccurence:757 |
Rv3346c |
transmembrane protein | 756 | 757 ctx | cooccurence:755 |
Rv3244c lpqB |
lipoprotein LpqB | 753 | 754 ctx | cooccurence:753 |
Rv3035 hyp |
hypothetical protein | 752 | 753 ctx | cooccurence:751 |
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: alpha-(1->3)-arabinofuranosyltransferase
- MTBC0 PGAP product: arabinofuranan 3-O-arabinosyltransferase
- Pfam (hmmscan --cut_ga): GT87 PF09594.17 (E=3e-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_217189.1)
- Domains: Pfam-A via hmmscan --cut_ga — GT87 (PF09594.17)
- 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
2F13Q - Curated reference: UniProt P9WMZ7 (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 —
92 functional partner(s); context anchor
aftD - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002847|Rv2673|aftC MYGALVTAADSIRTGLGASLLAGFRPRTGAPSTATILRSALWPAAVLSVLHRSIVLTTNGNITDDFKPVYRAVLNFRRGWDIYNEHFDYVDPHYLYPPGGTLLMAPFGYLPFAPSRYLFISINTAAILVAAYLLLRMFNFTLTSVAAPALILAMFATETVTNTLVFTNINGCILLLEVLFLRWLLDGRASRQWCGGLAIGLTLVLKPLLGPLLLLPLLNRQWRALVAAVVVPVVVNVAALPLVSDPMSFFTRTLPYILGTRDYFNSSILGNGVYFGLPTWLILFLRILFTAITFGALWLLYRYYRTGDPLFWFTTSSGVLLLWSWLVMSLAQGYYSMMLFPFLMTVVLPNSVIRNWPAWLGVYGFMTLDRWLLFNWMRWGRALEYLKITYGWSLLLIVTFTVLYFRYLDAKADNRLDGGIDPAWLTPEREGQR