Rv1069c Family assigned · medium auto-curated
H37Rv Rv1069c · MTBC0 mtbc0_001149 ·
587 aa · 1200779–1202542 (-) ·
RefSeq NP_215585.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | alpha/beta-hydrolase family protein |
| Revised (this work) | Alpha/beta-hydrolase family protein. Pfam: Abhydrolase_9_N (PF15420.12), Abhydrolase_9 (PF10081.16). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O53417
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Conserved protein |
UniProt still lists this protein as Conserved protein; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | membrane |
| Orthologous group | COG4425 |
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 | 0.627 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 11 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 |
|---|---|---|---|---|
Abhydrolase_9_N | PF15420.12 | 2.4e-75 | 63–270 | Alpha/beta-hydrolase family N-terminus |
Abhydrolase_9 | PF10081.16 | 9.8e-133 | 287–574 | Alpha/beta-hydrolase family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: echA8 (enoyl-CoA hydratase EchA8), high confidence from genomic context alone (score 887 excluding text-mining). This association is the citable seed of a function hypothesis for this hypothetical protein.
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1070c echA8 |
enoyl-CoA hydratase EchA8 | 887 | 887 ctx | neighborhood:881 |
Rv1071c echA9 |
enoyl-CoA hydratase EchA9 | 879 | 880 ctx | neighborhood:876 |
Rv1863c |
integral membrane protein | 687 | 688 ctx | cooccurence:676 |
Rv0803 purL |
phosphoribosylformylglycinamidine synthase 2 | 548 | 549 ctx | neighborhood:544 |
Rv0807 hyp |
hypothetical protein | 544 | 544 ctx | neighborhood:544 |
Rv1072 |
transmembrane protein | 501 | 501 ctx | neighborhood:498 |
Rv2982c gpdA2 |
glycerol-3-phosphate dehydrogenase | 870 | 46 | textmining:870 |
Rv1844c gnd1 |
6-phosphogluconate dehydrogenase | 810 | 44 | textmining:810 |
Rv2869c rip |
zinc metalloprotease | 655 | 44 | textmining:654 |
Rv0564c gpdA1 |
glycerol-3-phosphate dehydrogenase | 807 | 41 | textmining:807 |
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: hypothetical protein
- MTBC0 PGAP product: alpha/beta-hydrolase family protein
- Pfam (hmmscan --cut_ga): Abhydrolase_9_N PF15420.12 (E=2e-75), Abhydrolase_9 PF10081.16 (E=1e-132)
- (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_215585.1)
- Domains: Pfam-A via hmmscan --cut_ga — Abhydrolase_9_N (PF15420.12), Abhydrolase_9 (PF10081.16)
- 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
COG4425 - Curated reference: UniProt O53417 (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 —
10 functional partner(s); context anchor
echA8 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001149|Rv1069c| MTEPAAATTTNASDEPATGAEQAVDTAATPQTPEPQPIRSTWWIRHYTFTGTAMGLVFVWFSMTPSLLPRGPLFQGLVSGICGAFGYGLGVFAVWLVRYMRSHNSSPPPPRWAWPPLIAVGAVGMVGMAVQFHVWQDDVRDLMGVEHLRWYDYPLAAALSLVVLFTLVEIGQFIRWLFRFLVGQVDRIAPFRVSAAIVVVLLVVLTITLLNGVVLKFAMNSMNSTFAAVNNEMNPDSAPPKTPLRSGGPGSLVSWESLGHQGRIFVHSGPTIADLTAFNGTPAVEPIRTYAGLNSADGIMATAELAARELARTGGLRRAVVAVATSTGTGWINEAEASALEYMYNGDTAIVSMQYSFLPSWLSFLVDKENARHAGEALFEAVDKLIRQLPESQRPKLVVFGESLGSFGGEAPFMNLNNILARTDGALFSGPTFNNTVWNSLTANRDAGSPQWLPIYDDGRNVRFVARARDLQRPDAPWGRPRVVYLQHASDPIAWWTPRLLFREPDWLREQRGYDVLPQTRWIPVVTFVQVSADMAVATHVPDGHGHRYVATVADGWAAVLSPPGWTQQKTERLQPLLHANAKPFGS