otsB2 Resolved · high auto-curated
H37Rv Rv3372 · MTBC0 mtbc0_003587 ·
391 aa · 3813031–3814206 (+) ·
RefSeq NP_217889.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | trehalose 6-phosphate phosphatase |
|---|---|
| MTBC0 PGAP re-annotation | trehalose-phosphatase |
| Revised (this work) | Trehalose-phosphatase. Pfam: Trehalose_PPase (PF02358.23). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WFZ5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Trehalose-phosphate phosphatase |
| EC (curated) |
EC 3.1.3.12
|
| Curated function | Removes the phosphate from trehalose 6-phosphate to produce free trehalose. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
F Nucleotide transport and metabolism
|
|---|---|
| Preferred name | otsB2 |
| eggNOG description | Removes the phosphate from trehalose 6-phosphate to produce free trehalose |
| Orthologous group | COG0561 |
| EC number |
EC 3.1.3.12
|
| KEGG orthology |
K01087
|
| KEGG pathways |
map00500, map01100
|
| Gene Ontology (47) |
GO:0000287, GO:0003674, GO:0003824, GO:0004805, GO:0005488, GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0005975 +35 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 | 0.617 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 5 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 |
|---|---|---|---|---|
Trehalose_PPase | PF02358.23 | 6.6e-74 | 145–369 | Trehalose-phosphatase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: otsA (trehalose-phosphate synthase), high confidence from genomic context alone (score 996 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3490 otsA |
trehalose-phosphate synthase | 999 | 996 ctx | fusion:545 cooccurence:769 coexpression:651 database:900 textmining:963 |
Rv2006 otsB1 |
trehalose-6-phosphate phosphatase OtsB | 987 | 973 ctx | neighborhood:544 database:900 textmining:561 |
Rv2402 |
trehalase | 988 | 966 ctx | cooccurence:633 database:900 textmining:664 |
Rv1562c treZ |
malto-oligosyltrehalose trehalohydrolase | 994 | 964 | coexpression:407 database:900 textmining:865 |
Rv0126 treS |
trehalose synthase/amylase TreS | 991 | 960 | database:900 textmining:807 |
Rv3401 |
glycosyl hydrolase | 963 | 950 | database:900 |
Rv3371 |
diacyglycerol O-acyltransferase | 737 | 726 ctx | neighborhood:682 |
Rv3370c dnaE2 |
error-prone DNA polymerase | 725 | 726 ctx | neighborhood:725 |
Rv3491 hyp |
hypothetical protein | 737 | 692 | coexpression:650 |
Rv0029 hyp |
hypothetical protein | 656 | 656 | coexpression:656 |
Rv0342 iniA |
isoniazid inductible protein IniA | 629 | 630 | database:587 |
Rv1770 hyp |
hypothetical protein | 613 | 610 | database:584 |
Rv0418 lpqL |
lipoprotein aminopeptidase LpqL | 611 | 609 | database:584 |
Rv1327c glgE |
alpha-1,4-glucan:maltose-1-phosphate maltosyltransferase | 841 | 588 | textmining:632 |
Rv2124c metH |
methionine synthase | 563 | 564 ctx | neighborhood:544 |
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: trehalose 6-phosphate phosphatase
- MTBC0 PGAP product: trehalose-phosphatase
- Pfam (hmmscan --cut_ga): Trehalose_PPase PF02358.23 (E=7e-74)
- (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_217889.1)
- Domains: Pfam-A via hmmscan --cut_ga — Trehalose_PPase (PF02358.23)
- 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
COG0561 - Curated reference: UniProt P9WFZ5 (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 —
102 functional partner(s); context anchor
otsA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003587|Rv3372|otsB2 MRKLGPVTIDPRRHDAVLFDTTLDATQELVRQLQEVGVGTGVFGSGLDVPIVAAGRLAVRPGRCVVVSAHSAGVTAARESGFALIIGVDRTGCRDALRRDGADTVVTDLSEVSVRTGDRRMSQLPDALQALGLADGLVARQPAVFFDFDGTLSDIVEDPDAAWLAPGALEALQKLAARCPIAVLSGRDLADVTQRVGLPGIWYAGSHGFELTAPDGTHHQNDAAAAAIPVLKQAAAELRQQLGPFPGVVVEHKRFGVAVHYRNAARDRVGEVAAAVRTAEQRHALRVTTGREVIELRPDVDWDKGKTLLWVLDHLPHSGSAPLVPIYLGDDITDEDAFDVVGPHGVPIVVRHTDDGDRATAALFALDSPARVAEFTDRLARQLREAPLRAT