Rv0435c Family assigned · medium auto-curated
H37Rv Rv0435c · MTBC0 mtbc0_000457 ·
728 aa · 525712–527898 (-) ·
RefSeq NP_214949.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | ATPase |
|---|---|
| MTBC0 PGAP re-annotation | AAA family ATPase |
| Revised (this work) | AAA family ATPase. Pfam: CDC48_N (PF02359.25), AAA (PF00004.36), AAA_lid_3 (PF17862.8). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P96281
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Conserved ATPase |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
O Post-translational modification, protein turnover, chaperones
|
|---|---|
| eggNOG description | Belongs to the AAA ATPase family |
| Orthologous group | COG0464 |
| KEGG orthology |
K13525
|
| KEGG pathways |
map04141, map05134
|
| KEGG modules |
M00400, M00403
|
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) | 13 synonymous, 6 missense, 1 nonsense, 0 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.12% of strains (178) · clonal |
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 |
|---|---|---|---|---|
CDC48_N | PF02359.25 | 9.8e-13 | 22–94 | Cell division protein 48 (CDC48), N-terminal domain |
AAA | PF00004.36 | 1.1e-38 | 501–631 | ATPase family associated with various cellular activities (AAA) |
AAA_lid_3 | PF17862.8 | 2.2e-10 | 654–698 | AAA+ lid domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: pssA (CDP-diacylglycerol--serine O-phosphatidyltransferase), high confidence from genomic context alone (score 896 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0436c pssA |
CDP-diacylglycerol--serine O-phosphatidyltransferase | 896 | 896 ctx | neighborhood:881 |
Rv0437c psd |
phosphatidylserine decarboxylase | 888 | 884 ctx | neighborhood:881 |
Rv0438c moeA2 |
molybdopterin molybdenumtransferase | 812 | 804 ctx | neighborhood:802 |
Rv1349 irtB |
iron ABC transporter ATP-binding protein/permease IrtB | 809 | 800 ctx | cooccurence:429 database:528 |
Rv2110c prcB |
proteasome subunit beta | 785 | 772 | experimental:406 database:537 |
Rv1348 irtA |
iron ABC transporter ATP-binding protein/permease IrtA | 773 | 745 | database:528 |
Rv3696c glpK |
glycerol kinase | 744 | 745 | database:606 |
Rv2109c prcA |
proteasome subunit alpha | 756 | 741 | experimental:406 database:537 |
Rv2115c mpa |
proteasome-associated ATPase | 717 | 717 | database:566 |
Rv0439c |
dehydrogenase/reductase | 708 | 707 ctx | neighborhood:613 |
Rv1334 mec |
[CysO | 707 | 690 | database:502 |
Rv0350 dnaK |
chaperone protein DnaK | 703 | 688 | database:468 |
Rv2861c mapB |
methionine aminopeptidase | 696 | 677 | database:442 |
Rv1272c |
drug ABC transporter ATP-binding protein | 691 | 676 | database:528 |
Rv1819c bacA |
vitamin B12 transport ATP-binding protein BacA | 690 | 673 | database:617 |
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: ATPase
- MTBC0 PGAP product: AAA family ATPase
- Pfam (hmmscan --cut_ga): CDC48_N PF02359.25 (E=1e-12), AAA PF00004.36 (E=1e-38), AAA_lid_3 PF17862.8 (E=2e-10)
- (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_214949.1)
- Domains: Pfam-A via hmmscan --cut_ga — CDC48_N (PF02359.25), AAA (PF00004.36), AAA_lid_3 (PF17862.8)
- 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
COG0464 - Curated reference: UniProt P96281 (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 —
135 functional partner(s); context anchor
pssA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000457|Rv0435c| MTHPDPARQLTLTARLNTSAVDSRRGVVRLHPNAIAALGIREWDAVSLTGSRTTAAVAGLAAADTAVGTVLLDDVTLSNAGLREGTEVIVSPVTVYGARSVTLSGSTLATQSVPPVTLRQALLGKVMTVGDAVSLLPRDLGPGTSTSAASRALAAAVGISWTSELLTVTGVDPDGPVSVQPNSLVTWGAGVPAAMGTSTAGQVSISSPEIQIEELKGAQPQAAKLTEWLKLALDEPHLLQTLGAGTNLGVLVSGPAGVGKATLVRAVCDGRRLVTLDGPEIGALAAGDRVKAVASAVQAVRHEGGVLLITDADALLPAAAEPVASLILSELRTAVATAGVVLIATSARPDQLDARLRSPELCDRELGLPLPDAATRKSLLEALLNPVPTGDLNLDEIASRTPGFVVADLAALVREAALRAASRASADGRPPMLHQDDLLGALTVIRPLSRSASDEVTVGDVTLDDVGDMAAAKQALTEAVLWPLQHPDTFARLGVEPPRGVLLYGPPGCGKTFVVRALASTGQLSVHAVKGSELMDKWVGSSEKAVRELFRRARDSAPSLVFLDELDALAPRRGQSFDSGVSDRVVAALLTELDGIDPLRDVVMLGATNRPDLIDPALLRPGRLERLVFVEPPDAAARREILRTAGKSIPLSSDVDLDEVAAGLDGYSAADCVALLREAALTAMRRSIDAANVTAADLATARETVRASLDPLQVASLRKFGTKGDLRS