mpa Resolved · high auto-curated
H37Rv Rv2115c · MTBC0 mtbc0_002247 ·
609 aa · 2401724–2403553 (-) ·
RefSeq NP_216631.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | proteasome-associated ATPase |
|---|---|
| MTBC0 PGAP re-annotation | proteasome ATPase |
| Revised (this work) | Proteasome ATPase. Pfam: Prot_ATP_ID_OB_N (PF17758.8), Prot_ATP_ID_OB_C (PF16450.12), AAA (PF00004.36). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WQN5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Proteasome-associated ATPase |
| Curated function | ATPase which is responsible for recognizing, binding, unfolding and translocation of pupylated proteins into the bacterial 20S proteasome core particle. May be essential for opening the gate of the 20S proteasome via an interaction with its C-terminus, thereby allowing substrate entry and access to the site of proteolysis. Thus, the C-termini of the proteasomal ATPase may function like a 'key in a lock' to induce gate opening and therefore regulate proteolysis. Is required but not sufficient to confer resistance against the lethal effects of reactive nitrogen intermediates (RNI), antimicrobial. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
O Post-translational modification, protein turnover, chaperones
|
|---|---|
| Preferred name | arc |
| eggNOG description | ATPase which is responsible for recognizing, binding, unfolding and translocation of pupylated proteins into the bacterial 20S proteasome core particle. May be essential for opening the gate of the 20S proteasome via an interaction with its C-terminus, thereby allowing substrate entry and access to the site of proteolysis. Thus, the C-termini of the proteasomal ATPase may function like a 'key in a lock' to induce gate opening and therefore regulate proteolysis |
| Orthologous group | COG1222 |
| KEGG orthology |
K13527
|
| KEGG pathways |
map03050
|
| KEGG modules |
M00342
|
| Gene Ontology (85) |
GO:0000302, GO:0000502, GO:0003674, GO:0003824, GO:0005488, GO:0005515, GO:0005575, GO:0005618, GO:0005622, GO:0005623, GO:0005886, GO:0006508 +73 more
|
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 | 0.217 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 4 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 |
|---|---|---|---|---|
Prot_ATP_ID_OB_N | PF17758.8 | 7.8e-24 | 101–160 | Proteasomal ATPase OB N-terminal domain |
Prot_ATP_ID_OB_C | PF16450.12 | 8.3e-18 | 161–234 | Proteasomal ATPase OB C-terminal domain |
AAA | PF00004.36 | 2.9e-37 | 289–438 | ATPase family associated with various cellular activities (AAA) |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: prcA (proteasome subunit alpha), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2109c prcA |
proteasome subunit alpha | 999 | 1000 ctx | cooccurence:757 experimental:999 database:662 textmining:657 |
Rv2111c pup |
ubiquitin-like protein Pup | 997 | 996 ctx | cooccurence:764 experimental:982 |
Rv2110c prcB |
proteasome subunit beta | 998 | 993 ctx | cooccurence:764 experimental:898 database:662 textmining:805 |
Rv1334 mec |
[CysO | 994 | 993 | coexpression:463 experimental:918 database:844 |
Rv3696c glpK |
glycerol kinase | 990 | 989 | experimental:916 database:844 |
Rv3780 bpa hyp |
hypothetical protein | 984 | 971 ctx | cooccurence:724 database:900 textmining:466 |
Rv2097c pafA |
proteasome accessory factor PafA | 984 | 835 ctx | cooccurence:774 textmining:908 |
Rv2112c dop |
pup deamidase/depupylase | 904 | 828 ctx | cooccurence:774 textmining:465 |
Rv0983 pepD |
serine protease PepD | 831 | 821 | experimental:551 database:594 |
Rv1223 htrA |
serine protease HtrA | 831 | 820 | experimental:551 database:594 |
Rv3671c marP |
serine protease | 824 | 813 | experimental:551 database:594 |
Rv0125 pepA |
serine protease PepA | 824 | 813 | experimental:551 database:594 |
Rv1043c hyp |
hypothetical protein | 824 | 813 | experimental:551 database:594 |
Rv1488 hyp |
hypothetical protein | 821 | 804 | coexpression:779 |
Rv2867c |
GCN5-like N-acetyltransferase | 789 | 790 | coexpression:732 |
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: proteasome-associated ATPase
- MTBC0 PGAP product: proteasome ATPase
- Pfam (hmmscan --cut_ga): Prot_ATP_ID_OB_N PF17758.8 (E=8e-24), Prot_ATP_ID_OB_C PF16450.12 (E=8e-18), AAA PF00004.36 (E=3e-37)
- (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_216631.1)
- Domains: Pfam-A via hmmscan --cut_ga — Prot_ATP_ID_OB_N (PF17758.8), Prot_ATP_ID_OB_C (PF16450.12), AAA (PF00004.36)
- 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
COG1222 - Curated reference: UniProt P9WQN5 (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 —
72 functional partner(s); context anchor
prcA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002247|Rv2115c|mpa MGESERSEAFGIPRDSPLSSGDAAELEQLRREAAVLREQLENAVGSHAPTRSARDIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLGQPPSGYGVLLATHDDDTVDVFTSGRKMRLTCSPNIDAASLKKGQTVRLNEALTVVEAGTFEAVGEISTLREILADGHRALVVGHADEERVVWLADPLIAEDLPDGLPEALNDDTRPRKLRPGDSLLVDTKAGYAFERIPKAEVEDLVLEEVPDVSYADIGGLSRQIEQIRDAVELPFLHKELYREYSLRPPKGVLLYGPPGCGKTLIAKAVANSLAKKMAEVRGDDAHEAKSYFLNIKGPELLNKFVGETERHIRLIFQRAREKASEGTPVIVFFDEMDSIFRTRGTGVSSDVETTVVPQLLSEIDGVEGLENVIVIGASNREDMIDPAILRPGRLDVKIKIERPDAEAAQDIYSKYLTEFLPVHADDLAEFDGDRSACIKAMIEKVVDRMYAEIDDNRFLEVTYANGDKEVMYFKDFNSGAMIQNVVDRAKKNAIKSVLETGQPGLRIQHLLDSIVDEFAENEDLPNTTNPDDWARISGKKGERIVYIRTLVTGKSSSASRAIDTESNLGQYL