Rv3777 Resolved · high auto-curated
H37Rv Rv3777 · MTBC0 - ·
328 aa · 4222694–4223680 (+) ·
RefSeq NP_218294.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | oxidoreductase |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Oxidoreductase. Pfam: ADH_N (PF08240.18), ADH_zinc_N (PF00107.33), ADH_zinc_N_2 (PF13602.13). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Annotated on the H37Rv protein: this gene has no 1:1 ancestral MTBC0 anchor (PE/PPE, paralogue, IS element, or otherwise unanchored CDS).
Curated reference (UniProt)
| UniProt |
P72043
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable oxidoreductase |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
C Energy production and conversion
|
|---|---|
| Preferred name | cryz |
| eggNOG description | NAD(P)H quinone oxidoreductase |
| Orthologous group | COG0604 |
| EC number |
EC 1.6.5.5
|
| KEGG orthology |
K00344
|
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 | 0.264 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 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 |
|---|---|---|---|---|
ADH_N | PF08240.18 | 1.3e-19 | 26–109 | Alcohol dehydrogenase GroES-like domain |
ADH_zinc_N | PF00107.33 | 5.5e-26 | 151–266 | Zinc-binding dehydrogenase |
ADH_zinc_N_2 | PF13602.13 | 3.1e-21 | 183–326 | Zinc-binding dehydrogenase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: pks3 (polyketide beta-ketoacyl synthase), high confidence from genomic context alone (score 916 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1180 pks3 |
polyketide beta-ketoacyl synthase | 917 | 916 ctx | fusion:899 |
Rv2382c mbtC |
polyketide synthetase | 916 | 916 ctx | fusion:900 |
Rv2947c pks15 |
polyketide synthase | 916 | 916 ctx | fusion:900 |
Rv1664 pks9 |
polyketide synthase | 867 | 866 ctx | fusion:840 |
Rv1663 pks17 |
polyketide synthase | 871 | 865 ctx | fusion:835 |
Rv3776 hyp |
hypothetical protein | 693 | 693 ctx | neighborhood:625 |
Rv3774 echA21 |
enoyl-CoA hydratase EchA21 | 529 | 527 ctx | neighborhood:460 |
Rv2932 ppsB |
phthiocerol synthesis polyketide synthase type I PpsB | 552 | 523 | |
Rv0405 pks6 |
membrane bound polyketide synthase | 500 | 476 | |
Rv3775 lipE |
lipase LipE | 472 | 473 ctx | neighborhood:470 |
Rv0182c sigG |
ECF RNA polymerase sigma factor SigG | 435 | 433 | coexpression:423 |
Rv2931 ppsA |
phthiocerol synthesis polyketide synthase type I PpsA | 433 | 406 | |
Rv3549c |
short-chain type dehydrogenase/reductase | 835 | 180 | textmining:807 |
Rv3560c fadE30 |
acyl-CoA dehydrogenase FadE30 | 599 | 157 | textmining:544 |
Rv2272 |
transmembrane protein | 810 | 78 | textmining:803 |
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
- Annotation from H37Rv (no MTBC0 1:1 anchor; H37Rv protein used): oxidoreductase
- Pfam (hmmscan --cut_ga): ADH_N PF08240.18 (E=1e-19), ADH_zinc_N PF00107.33 (E=6e-26), ADH_zinc_N_2 PF13602.13 (E=3e-21)
- (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_218294.1)
- Domains: Pfam-A via hmmscan --cut_ga — ADH_N (PF08240.18), ADH_zinc_N (PF00107.33), ADH_zinc_N_2 (PF13602.13)
- 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
COG0604 - Curated reference: UniProt P72043 (TrEMBL, unreviewed; 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 —
21 functional partner(s); context anchor
pks3 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv3777| MTIMRAVVAESSDRLVWQEVPDVSAGPGEVLIKVAASGVNRADVLQAAGKYPPPPGVSDIIGLEVSGIVAAVGPGVTEWSAGQEVCALLAGGGYAEYVAVPADQVLPIPPSVNLVDSAALPEVACTVWSNLVMTAHLRPGQLVLIHGGASGIGSHAIQVVRALAARVAITAGSPEKLELCRDLGAQITINYRDEDFVARLKQETDGSGADIILDIMGASYLDRNIDALATDGQLIVIGMQGGVKAELNLGKLLTKRARVIGTTLRARPVSGPHGKAAIAQAVAASVWPMIAANRVRPVIGTRLPIQQAAQAHELMLSGKTFGKILLTV