Rv1836c Family assigned · medium auto-curated
H37Rv Rv1836c · MTBC0 mtbc0_001949 ·
677 aa · 2100635–2102668 (-) ·
RefSeq NP_216352.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | substrate-binding domain-containing protein |
| Revised (this work) | Substrate-binding domain-containing protein. Pfam: SBP_bac_11 (PF13531.12). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WLQ9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv1836c |
UniProt still lists this protein as Uncharacterized protein Rv1836c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | von willebrand factor type a |
| Orthologous group | COG2304 |
| Gene Ontology (15) |
GO:0005575, GO:0005576, GO:0005618, GO:0005623, GO:0005886, GO:0005887, GO:0016020, GO:0016021, GO:0030312, GO:0031224, GO:0031226, GO:0044425 +3 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 | 0.963 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 synonymous, 14 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 |
|---|---|---|---|---|
SBP_bac_11 | PF13531.12 | 2.8e-10 | 162–444 | Bacterial extracellular solute-binding protein |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: glcB (malate synthase), high confidence from genomic context alone (score 815 excluding text-mining). This association is the citable seed of a function hypothesis for this hypothetical protein.
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1837c glcB |
malate synthase | 814 | 815 ctx | neighborhood:763 |
Rv1835c |
serine esterase | 780 | 779 ctx | neighborhood:772 |
Rv1324 |
thioredoxin | 779 | 779 | coexpression:778 |
Rv3806c ubiA |
decaprenyl-phosphate phosphoribosyltransferase | 777 | 754 | coexpression:752 |
Rv1125 hyp |
hypothetical protein | 753 | 753 ctx | cooccurence:752 |
Rv3810 pirG |
cell surface protein | 752 | 753 ctx | cooccurence:746 |
Rv2719c chiZ |
membrane protein | 748 | 749 ctx | cooccurence:747 |
Rv3446c hyp |
hypothetical protein | 747 | 743 ctx | cooccurence:734 |
Rv2876 |
transmembrane protein | 743 | 743 ctx | cooccurence:742 |
Rv2042c hyp |
hypothetical protein | 741 | 742 ctx | cooccurence:741 |
Rv0383c ttfA hyp |
hypothetical protein | 741 | 741 ctx | cooccurence:741 |
Rv3808c glfT2 |
galactofuranosyl transferase GlfT | 739 | 740 | coexpression:740 |
Rv3035 hyp |
hypothetical protein | 734 | 734 ctx | cooccurence:723 |
Rv3028c fixB |
electron transfer flavoprotein subunit alpha | 733 | 733 | coexpression:732 |
Rv2743c hyp |
hypothetical protein | 729 | 730 ctx | cooccurence:727 |
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: hypothetical protein
- MTBC0 PGAP product: substrate-binding domain-containing protein
- Pfam (hmmscan --cut_ga): SBP_bac_11 PF13531.12 (E=3e-10)
- (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_216352.1)
- Domains: Pfam-A via hmmscan --cut_ga — SBP_bac_11 (PF13531.12)
- 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
COG2304 - Curated reference: UniProt P9WLQ9 (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 —
110 functional partner(s); context anchor
glcB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001949|Rv1836c| MGRHSKPDPEDSVDDLSDGHAAEQQHWEDISGSYDYPGVDQPDDGPLSSEGHYSAVGGYSASGSEDYPDIPPRPDWEPTGAEPIAAAPPPLFRFGHRGPGDWQAGHRSADGRRGVSIGVIVALVAVVVMVAGVILWRFFGDALSNRSHTAAARCVGGKDTVAVIADPSIADQVKESADSYNASAGPVGDRCVAVAVTSAGSDAVINGFIGKWPTELGGQPGLWIPSSSISAARLTGAAGSQAISDSRSLVISPVLLAVRPELQQALANQNWAALPGLQTNPNSLSGLDLPAWGSLRLAMPSSGNGDAAYLAGEAVAAASAPAGAPATAGIGAVRTLMGARPKLADDSLTAAMDTLLKPGDVATAPVHAVVTTEQQLFQRGQSLSDAENTLGSWLPPGPAAVADYPTVLLSGAWLSQEQTSAASAFARYLHKPEQLAKLARAGFRVSDVKPPSSPVTSFPALPSTLSVGDDSMRATLADTMVTASAGVAATIMLDQSMPNDEGGNSRLSNVVAALENRIKAMPPSSVVGLWTFDGREGRTEVPAGPLADPVNGQPRPAALTAALGKQYSSGGGAVSFTTLRLIYQEMLANYRVGQANSVLVITAGPHTDQTLDGPGLQDFIRKSADPAKPIAVNIIDFGADPDRATWEAVAQLSGGSYQNLETSASPDLATAVNIFLS