eccA1 Family assigned · medium auto-curated
H37Rv Rv3868 · MTBC0 mtbc0_004101 ·
573 aa · 4367471–4369192 (+) ·
RefSeq NP_218385.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | ESX-1 secretion system protein EccA1 |
|---|---|
| MTBC0 PGAP re-annotation | type VII secretion system ESX-1 AAA family ATPase EccA1 |
| Revised (this work) | Type VII secretion system ESX-1 AAA family ATPase EccA1. 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.
Curated reference (UniProt)
| UniProt |
P9WPH9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | ESX-1 secretion system protein EccA1 |
| Curated function | Part of the ESX-1 specialized secretion system, which delivers several virulence factors to host cells during infection, including the key virulence factors EsxA (ESAT-6) and EsxB (CFP-10). EccA1 exhibits ATPase activity and may provide energy for the export of ESX-1 substrates. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
O Post-translational modification, protein turnover, chaperones
|
|---|---|
| Preferred name | eccA1 |
| eggNOG description | EccA1 exhibits ATPase activity and may provide energy for the export of ESX-1 substrates |
| Orthologous group | COG0464 |
| Gene Ontology (22) |
GO:0003674, GO:0003824, GO:0005575, GO:0005623, GO:0005886, GO:0008150, GO:0016020, GO:0016462, GO:0016787, GO:0016817, GO:0016818, GO:0016887 +10 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 | 0.236 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 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 |
|---|---|---|---|---|
T7SS_EccA1_N | PF21545.4 | 3.3e-96 | 2–272 | T7SS, ESX-1 secretion system protein EccA1, N-terminal domain |
Mg_chelatase | PF01078.28 | 7.3e-05 | 315–369 | Magnesium chelatase, subunit ChlI |
AAA | PF00004.36 | 5.5e-22 | 330–464 | ATPase family associated with various cellular activities (AAA) |
AAA_lid_6 | PF17866.9 | 3.5e-12 | 467–564 | AAA lid domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: espH (ESX-1 secretion-associated protein EspH), high confidence from genomic context alone (score 964 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3867 espH |
ESX-1 secretion-associated protein EspH | 981 | 964 ctx | neighborhood:801 coexpression:827 textmining:490 |
Rv3866 espG1 |
ESX-1 secretion-associated protein EspG | 973 | 936 ctx | neighborhood:825 coexpression:651 textmining:609 |
Rv3870 eccCa1 |
ESX-1 secretion system protein EccCa | 969 | 920 ctx | neighborhood:881 textmining:639 |
Rv3869 eccB1 |
ESX-1 secretion system protein EccB | 957 | 905 ctx | neighborhood:881 textmining:575 |
Rv3865 espF |
ESX-1 secretion-associated protein EspF | 938 | 833 ctx | neighborhood:825 textmining:650 |
Rv3871 eccCb1 |
ESX-1 secretion system protein EccCb | 909 | 808 ctx | neighborhood:771 textmining:549 |
Rv2109c prcA |
proteasome subunit alpha | 760 | 746 | experimental:406 database:537 |
Rv3696c glpK |
glycerol kinase | 746 | 746 | database:606 |
Rv2110c prcB |
proteasome subunit beta | 756 | 742 | experimental:406 database:537 |
Rv1334 mec |
[CysO | 752 | 737 | database:502 |
Rv2115c mpa |
proteasome-associated ATPase | 710 | 710 | database:566 |
Rv3873 PPE68 |
PPE family protein PPE68 | 798 | 709 ctx | neighborhood:628 |
Rv0194 |
multidrug ABC transporter ATPase/permease | 683 | 664 | database:528 |
Rv2299c htpG |
chaperone protein HtpG | 690 | 663 | database:604 |
Rv1272c |
drug ABC transporter ATP-binding protein | 683 | 663 | database:528 |
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: ESX-1 secretion system protein EccA1
- MTBC0 PGAP product: type VII secretion system ESX-1 AAA family ATPase EccA1
- Pfam (hmmscan --cut_ga): T7SS_EccA1_N PF21545.4 (E=3e-96), Mg_chelatase PF01078.28 (E=7e-05), AAA PF00004.36 (E=6e-22), AAA_lid_6 PF17866.9 (E=4e-12)
- (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_218385.1)
- 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 P9WPH9 (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 —
130 functional partner(s); context anchor
espH - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_004101|Rv3868|eccA1 MTDRLASLFESAVSMLPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPEPKVAAALKDPSYRLKTTTAEQIASRADPWDPGSVVTDNSGRERLLAEAQAELDRQIGLTRVKNQIERYRAATLMARVRAAKGMKVAQPSKHMIFTGPPGTGKTTIARVVANILAGLGVIAEPKLVETSRKDFVAEYEGQSAVKTAKTIDQALGGVLFIDEAYALVQERDGRTDPFGQEALDTLLARMENDRDRLVVIIAGYSSDIDRLLETNEGLRSRFATRIEFDTYSPEELLEIANVIAAADDSALTAEAAENFLQAAKQLEQRMLRGRRALDVAGNGRYARQLVEASEQCRDMRLAQVLDIDTLDEDRLREINGSDMAEAIAAVHAHLNMRE