eccA3 Resolved · high auto-curated
H37Rv Rv0282 · MTBC0 - ·
631 aa · 342130–344025 (+) ·
RefSeq NP_214796.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | ESX-3 secretion system protein EccA |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | ESX-3 secretion system protein EccA. Pfam: T7SS_EccA1_N (PF21545.4), Mg_chelatase (PF01078.28), AAA (PF00004.36), AAA_lid_6 (PF17866.9). |
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 |
P9WPI3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | ESX-3 secretion system protein EccA3 |
| Curated function | Part of the ESX-3 specialized secretion system, which is important for iron and zinc uptake or homeostasis. EccA3 exhibits ATPase activity and may provide energy for the export of ESX-3 substrates (By similarity). |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
O Post-translational modification, protein turnover, chaperones
|
|---|---|
| Preferred name | eccA3 |
| eggNOG description | secretion |
| Orthologous group | COG0464 |
| Gene Ontology (51) |
GO:0005575, GO:0005618, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0006873, GO:0006875, GO:0006879, GO:0006950, GO:0007154 +39 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 | 0.257 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 8 synonymous, 6 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 |
|---|---|---|---|---|
T7SS_EccA1_N | PF21545.4 | 9.1e-90 | 43–316 | T7SS, ESX-1 secretion system protein EccA1, N-terminal domain |
Mg_chelatase | PF01078.28 | 1.5e-04 | 370–405 | Magnesium chelatase, subunit ChlI |
AAA | PF00004.36 | 2.4e-18 | 382–513 | ATPase family associated with various cellular activities (AAA) |
AAA_lid_6 | PF17866.9 | 1.0e-15 | 517–617 | AAA lid domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: eccB3 (ESX-3 secretion system protein EccB3), high confidence from genomic context alone (score 986 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0283 eccB3 |
ESX-3 secretion system protein EccB3 | 995 | 986 ctx | neighborhood:882 coexpression:860 textmining:690 |
Rv0284 eccC3 |
ESX-3 secretion system protein EccC3 | 994 | 984 ctx | neighborhood:881 coexpression:848 textmining:670 |
Rv0281 |
S-adenosylmethionine-dependent methyltransferase | 916 | 907 ctx | neighborhood:499 coexpression:798 |
Rv0286 PPE4 |
PPE family protein PPE4 | 929 | 895 ctx | neighborhood:801 coexpression:494 |
Rv0285 PE5 |
PE family protein PE5 | 894 | 882 ctx | neighborhood:882 |
Rv0289 espG3 |
ESX-3 secretion-associated protein EspG3 | 915 | 845 ctx | neighborhood:767 textmining:473 |
Rv0280 PPE3 |
PPE family protein PPE3 | 876 | 845 ctx | neighborhood:416 coexpression:746 |
Rv0290 eccD3 |
ESX-3 secretion system protein EccD | 943 | 835 ctx | neighborhood:668 cooccurence:405 textmining:673 |
Rv0291 mycP3 |
membrane-anchored mycosin MycP | 926 | 832 ctx | neighborhood:581 coexpression:515 textmining:578 |
Rv3696c glpK |
glycerol kinase | 744 | 745 | database:606 |
Rv2109c prcA |
proteasome subunit alpha | 756 | 742 | experimental:406 database:537 |
Rv2110c prcB |
proteasome subunit beta | 755 | 741 | experimental:406 database:537 |
Rv1348 irtA |
iron ABC transporter ATP-binding protein/permease IrtA | 855 | 716 | database:528 textmining:511 |
Rv2115c mpa |
proteasome-associated ATPase | 697 | 698 | database:566 |
Rv1334 mec |
[CysO | 705 | 687 | database:502 |
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): ESX-3 secretion system protein EccA
- Pfam (hmmscan --cut_ga): T7SS_EccA1_N PF21545.4 (E=9e-90), Mg_chelatase PF01078.28 (E=1e-04), AAA PF00004.36 (E=2e-18), AAA_lid_6 PF17866.9 (E=1e-15)
- (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_214796.1)
- Domains: Pfam-A via hmmscan --cut_ga — T7SS_EccA1_N (PF21545.4), Mg_chelatase (PF01078.28), AAA (PF00004.36), AAA_lid_6 (PF17866.9)
- 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 P9WPI3 (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 —
135 functional partner(s); context anchor
eccB3 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv0282|eccA3 MAGVGEGDSGGVERDDIGMVAASPVASRVNGKVDADVVGRFATCCRALGIAVYQRKRPPDLAAARSGFAALTRVAHDQCDAWTGLAAAGDQSIGVLEAASRTATTAGVLQRQVELADNALGFLYDTGLYLRFRATGPDDFHLAYAAALASTGGPEEFAKANHVVSGITERRAGWRAARWLAVVINYRAERWSDVVKLLTPMVNDPDLDEAFSHAAKITLGTALARLGMFAPALSYLEEPDGPVAVAAVDGALAKALVLRAHVDEESASEVLQDLYAAHPENEQVEQALSDTSFGIVTTTAGRIEARTDPWDPATEPGAEDFVDPAAHERKAALLHEAELQLAEFIGLDEVKRQVSRLKSSVAMELVRKQRGLTVAQRTHHLVFAGPPGTGKTTIARVVAKIYCGLGLLKRENIREVHRADLIGQHIGETEAKTNAIIDSALDGVLFLDEAYALVATGAKNDFGLVAIDTLLARMENDRDRLVVIIAGYRADLDKFLDTNEGLRSRFTRNIDFPSYTSHELVEIAHKMAEQRDSVFEQSALHDLEALFAKLAAESTPDTNGISRRSLDIAGNGRFVRNIVERSEEEREFRLDHSEHAGSGEFSDEELMTITADDVGRSVEPLLRGLGLSVRA