Rv2323c Family assigned · medium auto-curated
H37Rv Rv2323c · MTBC0 - ·
302 aa · 2595361–2596269 (-) ·
RefSeq NP_216839.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Contains DDAH_eukar (PF19420.6) 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.
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 |
P71889
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | N(G),N(G)-dimethylarginine dimethylaminohydrolase |
| EC (curated) |
EC 3.5.3.18
|
| Curated function | Hydrolyzes N(G),N(G)-dimethyl-L-arginine (ADMA) and N(G)-monomethyl-L-arginine (MMA). |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| eggNOG description | PFAM amidinotransferase |
| Orthologous group | COG1834 |
| Gene Ontology (6) |
GO:0003674, GO:0003824, GO:0016403, GO:0016787, GO:0016810, GO:0016813
|
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 | 2.367 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 7 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 |
|---|---|---|---|---|
DDAH_eukar | PF19420.6 | 1.8e-05 | 72–301 | N,N dimethylarginine dimethylhydrolase, eukaryotic |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: rocD1 (Rv2322c, (MTCY3G12.12), len: 221 aa. Probable rocD1,ornithine aminotransferase, highly similar to N-terminal region of other ornithine amino), high confidence from genomic context alone (score 984 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) |
|---|---|---|---|---|
Rv2322c rocD1 |
Rv2322c, (MTCY3G12.12), len: 221 aa. Probable rocD1,ornithine aminotransferase, highly similar to N-terminal region of other ornithine amino | 984 | 984 ctx | neighborhood:814 fusion:400 coexpression:820 |
Rv2321c rocD2 |
Rv2321c, (MTCY3G12.13), len: 181 aa. Probable rocD2,ornithine aminotransferase, highly similar to C-terminal region of other ornithine amino | 997 | 982 ctx | neighborhood:814 fusion:458 coexpression:772 textmining:876 |
Rv2320c rocE |
cationic amino acid transporter permease RocE | 987 | 965 ctx | neighborhood:800 coexpression:830 textmining:665 |
Rv2319c |
universal stress protein | 978 | 963 ctx | neighborhood:780 coexpression:840 textmining:433 |
Rv2324 |
AsnC family transcriptional regulator | 943 | 710 ctx | neighborhood:618 textmining:813 |
Rv1389 gmk |
guanylate kinase | 483 | 484 | |
Rv1239c corA |
magnesium and cobalt transport transmembrane protein CorA | 464 | 465 | |
Rv1607 chaA |
ionic transporter integral membrane protein ChaA | 427 | 427 | coexpression:424 |
Rv3335c yhjD |
integral membrane protein | 422 | 422 | coexpression:418 |
Rv2991 hyp |
hypothetical protein | 422 | 422 | coexpression:420 |
Rv2707 hyp |
hypothetical protein | 421 | 421 | coexpression:417 |
Rv1155 |
pyridoxine/pyridoxamine 5'-phosphate oxidase | 418 | 418 | coexpression:416 |
Rv3369 hyp |
hypothetical protein | 418 | 418 | coexpression:416 |
Rv2074 |
pyridoxamine 5'-phosphate oxidase | 416 | 416 | coexpression:414 |
Rv2216 |
epimerase family protein | 414 | 415 | coexpression:415 |
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): hypothetical protein
- Pfam (hmmscan --cut_ga): DDAH_eukar PF19420.6 (E=2e-05)
- (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_216839.1)
- Domains: Pfam-A via hmmscan --cut_ga — DDAH_eukar (PF19420.6)
- 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
COG1834 - Curated reference: UniProt P71889 (SwissProt, reviewed; 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 —
32 functional partner(s); context anchor
rocD1 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv2323c| MENTQRPSFDCEIRAKYRWFMTDSYVAAARLGSPARRTPRTRRYAMTPPAFFAVAYAINPWMDVTAPVDVQVAQAQWEHLHQTYLRLGHSVDLIEPISGLPDMVYTANGGFIAHDIAVVARFRFPERAGESRAYASWMSSVGYRPVTTRHVNEGQGDLLMVGERVLAGYGFRTDQRAHAEIAAVLGLPVVSLELVDPRFYHLDTALAVLDDHTIAYYPPAFSTAAQEQLSALFPDAIVVGSADAFVFGLNAVSDGLNVVLPVAAMGFAAQLRAAGFEPVGVDLSELLKGGGSVKCCTLEIHP