Rv1544 Family assigned · medium auto-curated
H37Rv Rv1544 · MTBC0 mtbc0_001651 ·
267 aa · 1755903–1756706 (+) ·
RefSeq NP_216060.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | ketoacyl reductase |
|---|---|
| MTBC0 PGAP re-annotation | SDR family oxidoreductase |
| Revised (this work) | SDR family oxidoreductase. Pfam: adh_short (PF00106.32), KR (PF08659.17), adh_short_C2 (PF13561.13). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
Q10782
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Possible ketoacyl reductase |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | Belongs to the short-chain dehydrogenases reductases (SDR) family |
| Orthologous group | COG0300 |
| KEGG orthology |
K07124
|
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 | 0.133 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 8 synonymous, 3 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.41% of strains (590) · clonal |
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_short | PF00106.32 | 7.7e-41 | 11–196 | short chain dehydrogenase |
KR | PF08659.17 | 8.4e-11 | 11–180 | KR domain |
adh_short_C2 | PF13561.13 | 1.2e-24 | 16–220 | Enoyl-(Acyl carrier protein) reductase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1543 (oxidoreductase), high confidence from genomic context alone (score 967 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1543 |
oxidoreductase | 974 | 967 ctx | neighborhood:801 coexpression:813 |
Rv1546 hyp |
hypothetical protein | 791 | 791 ctx | neighborhood:790 |
Rv1545 hyp |
hypothetical protein | 748 | 748 ctx | neighborhood:739 |
Rv1547 dnaE1 |
DNA polymerase III subunit alpha | 681 | 681 ctx | neighborhood:678 |
Rv1714 |
oxidoreductase | 600 | 591 ctx | cooccurence:532 |
Rv1350 fabG2 |
3-oxoacyl-ACP reductase FabG | 567 | 551 ctx | cooccurence:490 |
Rv3549c |
short-chain type dehydrogenase/reductase | 565 | 549 ctx | cooccurence:488 |
Rv1542c glbN |
hemoglobin GlbN | 540 | 540 ctx | neighborhood:540 |
Rv1483 fabG1 |
3-oxoacyl-ACP reductase FabG | 507 | 489 ctx | cooccurence:414 |
Rv0687 |
NAD-dependent oxidoreductase | 497 | 479 ctx | cooccurence:408 |
Rv2002 fabG3 |
3-alpha(or 20-beta)-hydroxysteroid dehydrogenase | 486 | 467 | |
Rv3559c |
oxidoreductase | 466 | 447 | |
Rv2750 |
dehydrogenase | 450 | 430 | |
Rv1541c lprI |
lipoprotein LprI | 408 | 408 ctx | neighborhood:406 |
Rv3480c |
diacyglycerol O-acyltransferase | 814 | 95 | 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
- Legacy H37Rv annotation: ketoacyl reductase
- MTBC0 PGAP product: SDR family oxidoreductase
- Pfam (hmmscan --cut_ga): adh_short PF00106.32 (E=8e-41), KR PF08659.17 (E=8e-11), adh_short_C2 PF13561.13 (E=1e-24)
- (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_216060.1)
- Domains: Pfam-A via hmmscan --cut_ga — adh_short (PF00106.32), KR (PF08659.17), adh_short_C2 (PF13561.13)
- 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
COG0300 - Curated reference: UniProt Q10782 (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 —
27 functional partner(s); context anchor
Rv1543 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001651|Rv1544| MSLPKPNNQTTVVITGASSGIGVELARGLAGRGFPLMLVARRRERLDELADQLRQEHCVGVEVLPLDLADTQARAQLADRLRSDAIAGLCNSAGFGTSGRFWELPFARESEEVVLNALALMELTHAALPGMVKRGAGAVLNIASIAGFQPIPYMAVYSATKAFVLTFSEAVQEELHGTGVSVTALCPGPVPTEWAEIASAERFSIPLAQVSPHDVAEAAIAGMLSGKRTVVPGIVPKFVSTSGRFAPRSLLLPAIRIGNRLRGGPSR