Rv1702c Resolved · medium auto-curated
H37Rv Rv1702c · MTBC0 mtbc0_001810 ·
454 aa · 1939226–1940590 (-) ·
RefSeq NP_216218.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | HNH endonuclease signature motif containing protein |
| Revised (this work) | HNH endonuclease signature motif containing protein. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WLT3
SwissProt · reviewed
· Inferred from homology
|
|---|---|
| UniProt name | Uncharacterized protein Rv1702cMb1728c |
UniProt still lists this protein as Uncharacterized protein Rv1702cMb1728c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
V Defense mechanisms
|
|---|---|
| eggNOG description | Domain of unknown function (DUF222) |
| Orthologous group | COG1403 |
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 | 2.072 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 12 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 |
|---|---|---|---|---|
DUF222 | PF02720.23 | 2.2e-116 | 38–361 | Domain of unknown function (DUF222) |
Functional interaction network (STRING v12, guilt-by-association)
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0515 hyp |
hypothetical protein | 972 | 809 ctx | cooccurence:747 textmining:861 |
Rv0094c hyp |
hypothetical protein | 802 | 803 | coexpression:797 |
Rv0336 hyp |
hypothetical protein | 958 | 802 ctx | cooccurence:747 textmining:801 |
Rv3776 hyp |
hypothetical protein | 917 | 772 ctx | cooccurence:691 textmining:655 |
Rv3467 hyp |
hypothetical protein | 747 | 747 | coexpression:740 |
Rv3354 hyp |
hypothetical protein | 693 | 674 | experimental:470 |
Rv1765c hyp |
hypothetical protein | 666 | 667 ctx | cooccurence:647 |
Rv2015c hyp |
hypothetical protein | 637 | 638 ctx | cooccurence:625 |
Rv3074 hyp |
hypothetical protein | 859 | 612 ctx | cooccurence:593 textmining:653 |
Rv1378c hyp |
hypothetical protein | 697 | 605 ctx | cooccurence:592 |
Rv3103c hyp |
hypothetical protein | 618 | 594 | experimental:512 |
Rv0073 |
glutamine ABC transporter ATP-binding protein | 617 | 581 | |
Rv0986 |
adhesion component ABC transporter ATP-binding protein | 599 | 579 | |
Rv2564 glnQ |
glutamine ABC transporter ATP-binding protein | 614 | 578 | |
Rv0756c hyp |
hypothetical protein | 534 | 534 ctx | cooccurence:533 |
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: HNH endonuclease signature motif containing protein
- Pfam (hmmscan --cut_ga): DUF222 PF02720.23 (E=2e-116)
- (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_216218.1)
- Domains: Pfam-A via hmmscan --cut_ga — DUF222 (PF02720.23)
- 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
COG1403 - Curated reference: UniProt P9WLT3 (SwissProt, reviewed; 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 — 39 functional partner(s)
- Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001810|Rv1702c| MYSSSREEAVAAFDNLDTALNRVLKVSPDDLTIPECLAMLQRCEKIRRRLPAAEHPFINKLADQTDQTELGGKLPFALAERLHISRGEASRRIHEAADLGPRRTLTGQPLPPLLTATAAAQRAGHLGPAHVQVIRCFLHQLPHHVDLPTREKAEAELATLGGRFRPDQLHKLATKLADCLNPDGNYNDTDRARRRSIILGNQGPDGMSAISGYLTPEARATVDAVLAKLAAPGMANPADDTPCLAGTPSQAAIEADTRSAGQRHHDGLLAALRALLCSGELGQHNGLPAAIIVSTSLTELQSRAGHALTGGGTLLPMSDVIRLASHANHYLRIFDHGRELALYHTKRLASPGQRIVLYAKDRGCSFPNCDVPGYLTEVHHVTDFAQCQETDINELTQGCGPHHQLATTGGWITRKRKDGTTEWLPPAHLDHGQPRTNSYFHPEKLLHDSDEDDP