Rv1775 Family assigned · medium auto-curated
H37Rv Rv1775 · MTBC0 mtbc0_001889 ·
272 aa · 2027183–2028001 (+) ·
RefSeq NP_216291.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | hypothetical protein |
| Revised (this work) | Contains DAPG_hydrolase (PF18089.8) domain(s); putative function inferred from the domain architecture. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O33178
TrEMBL · unreviewed
· Inferred from homology
|
|---|---|
| UniProt name | DAPG hydrolase PhiG domain-containing protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 2DBDZ |
|---|
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 | 1.846 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 5 missense, 1 nonsense, 3 frameshift |
| Disruption | 4 distinct premature-stop/frameshift site(s); most common in 24.09% of strains (34986) · convergent |
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 |
|---|---|---|---|---|
DAPG_hydrolase | PF18089.8 | 3.5e-56 | 49–267 | DAPG hydrolase PhiG domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1774 (oxidoreductase), high confidence from genomic context alone (score 921 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) |
|---|---|---|---|---|
Rv1774 |
oxidoreductase | 989 | 921 ctx | neighborhood:882 textmining:870 |
Rv1773c |
transcriptional regulator | 825 | 825 ctx | neighborhood:742 |
Rv3903c cpnT hyp |
hypothetical protein | 765 | 765 ctx | cooccurence:764 |
Rv0538 |
membrane protein | 761 | 762 ctx | cooccurence:761 |
Rv2113 |
integral membrane protein | 740 | 741 ctx | cooccurence:740 |
Rv1937 |
oxygenase | 725 | 726 ctx | cooccurence:724 |
Rv2761c hsdS |
type I restriction/modification system specificity determinant HsdS | 714 | 714 ctx | cooccurence:711 |
Rv3788 hyp |
hypothetical protein | 713 | 713 ctx | cooccurence:713 |
Rv0493c hyp |
hypothetical protein | 700 | 700 ctx | cooccurence:699 |
Rv1963c mce3R |
transcriptional repressor Mce3R | 639 | 640 ctx | cooccurence:638 |
Rv2939 papA5 |
phthiocerol/phthiodiolone dimycocerosyl transferase | 634 | 634 ctx | cooccurence:633 |
Rv1024 |
membrane protein | 628 | 629 ctx | cooccurence:627 |
Rv2843 hyp |
hypothetical protein | 619 | 619 ctx | cooccurence:619 |
Rv2164c hyp |
hypothetical protein | 616 | 616 ctx | cooccurence:614 |
Rv3732 hyp |
hypothetical protein | 591 | 592 ctx | cooccurence:589 |
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: hypothetical protein
- Pfam (hmmscan --cut_ga): DAPG_hydrolase PF18089.8 (E=3e-56)
- (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_216291.1)
- Domains: Pfam-A via hmmscan --cut_ga — DAPG_hydrolase (PF18089.8)
- 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
2DBDZ - Curated reference: UniProt O33178 (TrEMBL, unreviewed; Inferred from homology)
- 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 —
50 functional partner(s); context anchor
Rv1774 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001889|Rv1775| MASDLYLGYRNDDADTPFGKFFKPEMAPLPQHVVVALQHGPQAGMALLAFDDAASIVDEGYQQTENGYGILGDGSMQVSVRTDMPGVTPAMWAWWFGWHGSDTRRYKLWHPRAHLSARWKDGDQDSGAGRRGAQRYVGRWSMISEYIGSTKLGAAIQFVEPAAMGLPDDSDDTVSICARLGSADAPVDAGWFVHQVRSTPGGSEMRSRFWMGGPHIAVRKAPEVASKAVRPIASKLIGVSESTARNLLVYCAQEMNHLAGFLADLWESFGDE