Rv1500 Family assigned · medium auto-curated
H37Rv Rv1500 · MTBC0 mtbc0_001605 ·
342 aa · 1700655–1701683 (+) ·
RefSeq NP_216016.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | glycosyltransferase |
|---|---|
| MTBC0 PGAP re-annotation | glycosyltransferase family 2 protein |
| Revised (this work) | Glycosyltransferase family 2 protein. Pfam: Glycos_transf_2 (PF00535.33). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WMX5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Putative glycosyltransferases |
| EC (curated) |
EC 2.4.-.-
|
| Curated function | May play only a redundant role in maintaining cell wall viability and bacterial virulence. |
UniProt still lists this protein as Putative glycosyltransferases; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
M Cell wall / membrane / envelope biogenesis
|
|---|---|
| eggNOG description | Glycosyl transferase family 2 |
| Orthologous group | COG1216 |
| KEGG orthology |
K13670
|
| CAZy family |
GT2
|
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 | 3.295 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 9 missense, 1 nonsense, 1 frameshift |
| Disruption | 2 distinct premature-stop/frameshift site(s); most common in 0.46% of strains (661) · 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 |
|---|---|---|---|---|
Glycos_transf_2 | PF00535.33 | 3.3e-29 | 4–135 | Glycosyl transferase family 2 |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1503c (Rv1503c, (MTCY277.25c), len: 182 aa. Conserved hypothetical protein, similar to C-terminal region of P27833|RFFA_ECOLI lipopolysaccharide bi), medium confidence from genomic context alone (score 685 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1501 hyp |
hypothetical protein | 862 | 863 ctx | neighborhood:783 |
Rv1502 hyp |
hypothetical protein | 709 | 694 ctx | neighborhood:466 cooccurence:431 |
Rv1503c |
Rv1503c, (MTCY277.25c), len: 182 aa. Conserved hypothetical protein, similar to C-terminal region of P27833|RFFA_ECOLI lipopolysaccharide bi | 696 | 685 ctx | cooccurence:597 |
Rv1504c |
Rv1504c, (MTCY277.26c), len: 199 aa. Conserved hypothetical protein, similar to N-terminal region of P27833|RFFA_ECOLI lipopolysaccharide bi | 684 | 673 ctx | cooccurence:585 |
Rv1499 hyp |
hypothetical protein | 640 | 640 ctx | neighborhood:639 |
Rv1507c hyp |
hypothetical protein | 540 | 541 | |
Rv3402c hyp |
hypothetical protein | 554 | 537 | |
Rv1498A hyp |
hypothetical protein | 478 | 478 ctx | neighborhood:464 |
Rv1498c |
methyltransferase | 440 | 440 | |
Rv3781 rfbE |
O-antigen/lipopolysaccharide ABC transporter ATP-binding protein RfbE | 457 | 428 | |
Rv1505c hyp |
hypothetical protein | 453 | 428 | |
Rv3783 rfbD |
O-antigen/lipopolysaccharide ABC transporter permease RfbD | 423 | 393 | |
Rv2051c ppm1 |
polyprenol-monophosphomannose synthase | 625 | 218 | textmining:541 |
Rv2188c pimB |
alpha-(1-6)-phosphatidylinositol monomannoside mannosyltransferase | 720 | 198 | textmining:666 |
Rv0557 mgtA |
GDP-mannose-dependent alpha-mannosyltransferase | 718 | 198 | textmining:664 |
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: glycosyltransferase
- MTBC0 PGAP product: glycosyltransferase family 2 protein
- Pfam (hmmscan --cut_ga): Glycos_transf_2 PF00535.33 (E=3e-29)
- (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_216016.1)
- Domains: Pfam-A via hmmscan --cut_ga — Glycos_transf_2 (PF00535.33)
- 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 P9WMX5 (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 —
24 functional partner(s); context anchor
Rv1503c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001605|Rv1500| MRLSIVTTMYMSEPYVLEFYRRARAAADKITPDVEIIFVDDGSPDAALQQAVSLLDSDPCVRVIQLSRNFGHHKAMMTGLAHATGDLVFLIDSDLEEDPALLEPFYEKLISTGADVVFGCHARRPGGWLRNFGPKIHYRASALLCDPPLHENTLTVRLMTADYVRSLVQHQERELSIAGLWQITGFYQVPMSVNKAWKGTTTYTFRRKVATLVDNVTSFSNKPLVFIFYLGAAIFIISSSAAGYLIIDRIFFRALQAGWASVIVSIWMLGGVTIFCIGLVGIYVSKVFIETKQRPYTIIRRIYGSDLTTREPSSLKTAFPAAHLSNGKRVTSEPEGLATGNR