Rv2522c Resolved · high auto-curated
H37Rv Rv2522c · MTBC0 mtbc0_002686 ·
470 aa · 2861019–2862431 (-) ·
RefSeq NP_217038.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | dipeptidase |
| Revised (this work) | Dipeptidase. Pfam: Peptidase_M20 (PF01546.34), M20_dimer (PF07687.20). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6X4J0
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Peptidase M20 dimerisation domain-containing protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| Preferred name | argE |
| eggNOG description | COG0624 Acetylornithine deacetylase Succinyl-diaminopimelate desuccinylase and related deacylases |
| Orthologous group | COG0624 |
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 | 0.307 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 5 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 |
|---|---|---|---|---|
Peptidase_M20 | PF01546.34 | 9.4e-30 | 102–457 | Peptidase family M20/M25/M40 |
M20_dimer | PF07687.20 | 2.2e-13 | 211–360 | Peptidase dimerisation domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: acpS (holo-ACP synthase), high confidence from genomic context alone (score 832 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) |
|---|---|---|---|---|
Rv2523c acpS |
holo-ACP synthase | 832 | 832 ctx | neighborhood:817 |
Rv2524c fas |
fatty acid synthase | 569 | 547 ctx | neighborhood:539 |
Rv1652 argC |
N-acetyl-gamma-glutamyl-phoshate reductase | 544 | 495 | coexpression:401 |
Rv1658 argG |
argininosuccinate synthase | 519 | 468 | |
Rv3436c glmS |
glucosamine--fructose-6-phosphate aminotransferase | 492 | 438 | experimental:419 |
Rv2438c nadE |
glutamine-dependent NAD(+) synthetase | 433 | 362 | |
Rv1202 dapE |
succinyl-diaminopimelate desuccinylase DapE | 409 | 45 | textmining:407 |
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: dipeptidase
- Pfam (hmmscan --cut_ga): Peptidase_M20 PF01546.34 (E=9e-30), M20_dimer PF07687.20 (E=2e-13)
- (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_217038.1)
- Domains: Pfam-A via hmmscan --cut_ga — Peptidase_M20 (PF01546.34), M20_dimer (PF07687.20)
- 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
COG0624 - Curated reference: UniProt I6X4J0 (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 —
7 functional partner(s); context anchor
acpS - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002686|Rv2522c| MSASRRRIASKSGFSCDSASARELVERVREVLPSVRCDLEELVRIESVWADPDRRDEVHRSARAVADLLSQAGFDDVRIVSERGAPAVIARYPAPPGAPTVLLYAHHDVQPEGDRGQWVSPPFEPTERGGRLYGRGTADDKAGIATHVAAFWAHGGRPPVGVTVFVEGEEESGSPSLGRLLAAHRDALAADVIVIADSDNWSTDIPALTVSLRGMADCVVEVATLDHGLHSGLWGGVVPDALTVLVRLLASLHDDDGNVAVAGMHESTAARVDYPAGRVRAESGLLDGVSEIGTGSVPQRLWAKPAITVIGIDTTSVAAASNTLIPRARAKISIRVAPGGDATAHLDAVEAHLRRHAPWGAQVTVTRGEVGQPYAIEASGPVYDAARSAFRQAWGADPIDMGMGGSIPFIAEFAAAFPQATILVTGVEDPGTQAHSVNESLHLGVLERAATAEALLLAKLAAIPTGRAEA