devB Resolved · high auto-curated
H37Rv Rv1445c · MTBC0 mtbc0_001547 ·
247 aa · 1633082–1633825 (-) ·
RefSeq NP_215961.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | 6-phosphogluconolactonase |
|---|---|
| MTBC0 PGAP re-annotation | 6-phosphogluconolactonase |
| Revised (this work) | 6-phosphogluconolactonase. Pfam: Glucosamine_iso (PF01182.27). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WQP5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | 6-phosphogluconolactonase |
| EC (curated) |
EC 3.1.1.31
|
| Curated function | Hydrolysis of 6-phosphogluconolactone to 6-phosphogluconate. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
G Carbohydrate transport and metabolism
|
|---|---|
| Preferred name | pgl |
| eggNOG description | 6-phosphogluconolactonase |
| Orthologous group | COG0363 |
| EC number |
EC 3.1.1.31
|
| KEGG orthology |
K01057
|
| KEGG pathways |
map00030, map01100, map01110, map01120, map01130, map01200
|
| KEGG modules |
M00004, M00006, M00008
|
| Gene Ontology (49) |
GO:0003674, GO:0003824, GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005886, GO:0006081, GO:0006098, GO:0006139, GO:0006725, GO:0006732 +37 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 | 0.872 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 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 |
|---|---|---|---|---|
Glucosamine_iso | PF01182.27 | 4.8e-74 | 10–235 | Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: zwf2 (glucose-6-phosphate 1-dehydrogenase), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1447c zwf2 |
glucose-6-phosphate 1-dehydrogenase | 999 | 1000 ctx | neighborhood:811 fusion:899 cooccurence:762 coexpression:691 database:900 textmining:711 |
Rv1121 zwf1 |
glucose-6-phosphate 1-dehydrogenase | 999 | 998 ctx | fusion:827 cooccurence:755 coexpression:482 database:900 textmining:749 |
Rv1446c opcA |
OXPP cycle protein OpcA | 996 | 996 ctx | neighborhood:882 fusion:892 coexpression:615 |
Rv1122 gnd2 |
6-phosphogluconate dehydrogenase (decarboxylating) | 964 | 962 ctx | cooccurence:577 database:900 |
Rv1844c gnd1 |
6-phosphogluconate dehydrogenase | 958 | 942 | database:900 |
Rv1448c tal |
transaldolase | 933 | 907 ctx | neighborhood:811 |
Rv1444c hyp |
hypothetical protein | 871 | 871 ctx | neighborhood:865 |
Rv1449c tkt |
transketolase | 912 | 831 ctx | neighborhood:798 textmining:499 |
Rv3332 nagA |
N-acetylglucosamine-6-phosphate deacetylase NagA | 847 | 827 | coexpression:692 experimental:431 |
Rv0187 |
O-methyltransferase | 637 | 638 ctx | fusion:625 |
Rv0510 hemC |
porphobilinogen deaminase | 659 | 628 ctx | fusion:620 |
Rv1547 dnaE1 |
DNA polymerase III subunit alpha | 486 | 486 | coexpression:482 |
Rv3370c dnaE2 |
error-prone DNA polymerase | 483 | 483 | coexpression:479 |
Rv2043c pncA |
pyrazinamidase/nicotinamidase PncA | 423 | 423 | coexpression:413 |
Rv3068c pgmA |
phosphoglucomutase PgmA | 471 | 403 |
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: 6-phosphogluconolactonase
- MTBC0 PGAP product: 6-phosphogluconolactonase
- Pfam (hmmscan --cut_ga): Glucosamine_iso PF01182.27 (E=5e-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_215961.1)
- Domains: Pfam-A via hmmscan --cut_ga — Glucosamine_iso (PF01182.27)
- 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
COG0363 - Curated reference: UniProt P9WQP5 (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 —
30 functional partner(s); context anchor
zwf2 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001547|Rv1445c|devB MSSSIEIFPDSDILVAAAGKRLVGAIGAAVAARGQALIVLTGGGNGIALLRYLSAQAQQIEWSKVHLFWGDERYVPEDDDERNLKQARRALLNHVDIPSNQVHPMAASDGDFGGDLDAAALAYEQVLAASAAPGDPAPNFDVHLLGMGPEGHINSLFPHSPAVLESTRMVVAVDDSPKPPPRRITLTLPAIQRSREVWLLVSGPGKADAVAAAIGGADPVSVPAAGAVGRQNTLWLLDRDAAAKLPS