Rv1771 Resolved · high auto-curated
H37Rv Rv1771 · MTBC0 mtbc0_001885 ·
428 aa · 2023172–2024458 (+) ·
RefSeq NP_216287.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | L-gulono-1,4-lactone dehydrogenase |
|---|---|
| MTBC0 PGAP re-annotation | L-gulono-1%2C4-lactone dehydrogenase |
| Revised (this work) | L-gulono-1%2C4-lactone dehydrogenase. Pfam: FAD_binding_4 (PF01565.29), ALO (PF04030.20). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WIT3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | L-gulono-1,4-lactone dehydrogenase |
| EC (curated) |
EC 1.1.2.-
|
| Curated function | Oxidizes L-gulono-1,4-lactone to L-xylo-hexulonolactone which spontaneously isomerizes to L-ascorbate. Can use both cytochrome c and phenazine methosulfate as exogenous electron acceptors, but molecular oxygen does not serve as a substrate. Is very specific for the L-gulono-1,4-lactone substrate, since it cannot oxidize L-galactono-1,4-lactone, D-glucurono-3,6-lactone, D-glucuronate, D-arabinose, or D-xylose. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
C Energy production and conversion
|
|---|---|
| eggNOG description | D-arabinono-1,4-lactone oxidase |
| Orthologous group | COG0277 |
| EC number |
EC 1.1.3.8
|
| KEGG orthology |
K00103
|
| KEGG pathways |
map00053, map01100
|
| KEGG modules |
M00129
|
| Gene Ontology (45) |
GO:0003674, GO:0003824, GO:0005575, GO:0005618, GO:0005623, GO:0005886, GO:0005975, GO:0005996, GO:0006082, GO:0006732, GO:0006766, GO:0006767 +33 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 | 0.529 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 synonymous, 8 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 |
|---|---|---|---|---|
FAD_binding_4 | PF01565.29 | 3.7e-32 | 16–150 | FAD binding domain |
ALO | PF04030.20 | 1.0e-93 | 172–425 | D-arabinono-1,4-lactone oxidase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1050 (oxidoreductase), medium confidence from genomic context alone (score 503 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1769 hyp |
hypothetical protein | 973 | 973 ctx | neighborhood:881 cooccurence:769 |
Rv1770 hyp |
hypothetical protein | 887 | 888 ctx | neighborhood:881 |
Rv2482c plsB2 |
glycerol-3-phosphate acyltransferase | 628 | 612 | database:549 |
Rv1551 plsB1 |
acyltransferase PlsB | 619 | 602 | database:549 |
Rv3806c ubiA |
decaprenyl-phosphate phosphoribosyltransferase | 588 | 568 | database:552 |
Rv1310 atpD |
ATP synthase subunit beta | 582 | 567 | database:538 |
Rv1305 atpE |
ATP synthase subunit C | 541 | 542 | database:526 |
Rv3633 hyp |
hypothetical protein | 549 | 533 | database:463 |
Rv1501 hyp |
hypothetical protein | 548 | 532 | database:463 |
Rv0694 mftD |
mycofactocin system heme/flavin oxidoreductase MftD | 541 | 521 | |
Rv1872c lldD2 |
L-lactate dehydrogenase | 537 | 517 | |
Rv3029c fixA |
electron transfer flavoprotein subunit beta | 526 | 503 | |
Rv1050 |
oxidoreductase | 502 | 503 ctx | fusion:485 |
Rv3028c fixB |
electron transfer flavoprotein subunit alpha | 522 | 499 | |
Rv1768 PE_PGRS31 |
PE-PGRS family protein PE_PGRS31 | 779 | 490 ctx | neighborhood:473 textmining:585 |
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: L-gulono-1,4-lactone dehydrogenase
- MTBC0 PGAP product: L-gulono-1%2C4-lactone dehydrogenase
- Pfam (hmmscan --cut_ga): FAD_binding_4 PF01565.29 (E=4e-32), ALO PF04030.20 (E=1e-93)
- (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_216287.1)
- Domains: Pfam-A via hmmscan --cut_ga — FAD_binding_4 (PF01565.29), ALO (PF04030.20)
- 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
COG0277 - Curated reference: UniProt P9WIT3 (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 —
43 functional partner(s); context anchor
Rv1050 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001885|Rv1771| MSPIWSNWPGEQVCAPSAIVRPTSEAELADVIAQAAKRGERVRAVGSGHSFTDIACTDGVMIDMTGLQRVLDVDQPTGLVTVEGGAKLRALGPQLAQRRLGLENQGDVDPQSITGATATATHGTGVRFQNLSARIVSLRLVTAGGEVLSLSEGDDYLAARVSLGALGVISQVTLQTVPLFTLHRHDQRRSLAQTLERLDEFVDGNDHFEFFVFPYADKALTRTMHRSDEQPKPTPGWQRMVGENFENGGLSLICQTGRRFPSVAPRLNRLMTNMMSSSTVQDRAYKVFATQRKVRFTEMEYAIPRENGREALQRVIDLVRRRSLPIMFPIEVRFSAPDDSFLSTAYGRDTCYIAVHQYAGMEFESYFRAVEEIMDDYAGRPHWGKRHYQTAATLRERYPQWDRFAAVRDRLDPDRVFLNDYTRRVLGP