eccC5 Resolved · high auto-curated
H37Rv Rv1783 · MTBC0 - ·
1391 aa · 2019257–2023432 (+) ·
RefSeq YP_007410461.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | ESX-5 type VII secretion system protein EccC5 |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | ESX-5 type VII secretion system protein EccC5. Pfam: FtsK_SpoIIIE (PF01580.25). |
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 |
P9WNA5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | ESX-5 secretion system protein EccC5 |
| Curated function | Part of the ESX-5 specialized secretion system, which is responsible for the secretion of EsxN and a number of PE_PGRS and PPE proteins, including PPE41. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
D Cell cycle control, cell division, chromosome partitioning
|
|---|---|
| Preferred name | eccCa |
| eggNOG description | Secretion protein |
| Orthologous group | COG1674 |
| KEGG orthology |
K03466
|
| Gene Ontology (8) |
GO:0005575, GO:0005618, GO:0005623, GO:0005886, GO:0016020, GO:0030312, GO:0044464, GO:0071944
|
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 | 0.204 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 16 synonymous, 10 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 |
|---|---|---|---|---|
FtsK_SpoIIIE | PF01580.25 | 1.9e-61 | 824–1096 | FtsK/SpoIIIE family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: eccD5 (ESX-5 type VII secretion system protein EccD), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1795 eccD5 |
ESX-5 type VII secretion system protein EccD | 999 | 1000 ctx | cooccurence:761 experimental:999 textmining:988 |
Rv1782 eccB5 |
ESX-5 type VII secretion system protein EccB5 | 999 | 1000 ctx | neighborhood:881 cooccurence:771 coexpression:804 experimental:999 textmining:977 |
Rv1796 mycP5 |
membrane-anchored mycosin MycP | 984 | 940 ctx | cooccurence:698 experimental:800 textmining:752 |
Rv0283 eccB3 |
ESX-3 secretion system protein EccB3 | 933 | 923 ctx | cooccurence:561 experimental:824 |
Rv0290 eccD3 |
ESX-3 secretion system protein EccD | 891 | 875 | experimental:821 |
Rv3448 eccD4 |
ESX-4 secretion system protein EccD4 | 882 | 870 ctx | cooccurence:734 experimental:513 |
Rv3895c eccB2 |
ESX-2 secretion system protein EccB | 842 | 833 ctx | cooccurence:767 |
Rv3887c eccD2 |
ESX-2 secretion system protein EccD | 877 | 781 ctx | cooccurence:637 textmining:462 |
Rv3445c esxU |
ESAT-6 like protein EsxU | 732 | 698 | experimental:677 |
Rv3874 esxB |
ESAT-6-like protein EsxB | 860 | 691 | experimental:677 textmining:568 |
Rv3450c eccB4 |
ESX-4 secretion system protein EccB4 | 677 | 641 ctx | cooccurence:501 |
Rv2151c ftsQ |
cell division protein FtsQ | 627 | 604 | experimental:401 |
Rv0292 eccE3 |
ESX-3 secretion system protein EccE | 629 | 575 | experimental:571 |
Rv3886c mycP2 |
membrane-anchored mycosin | 593 | 541 ctx | cooccurence:517 |
Rv1781c malQ |
4-alpha-glucanotransferase | 593 | 508 ctx | neighborhood:505 |
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-5 type VII secretion system protein EccC5
- Pfam (hmmscan --cut_ga): FtsK_SpoIIIE PF01580.25 (E=2e-61)
- (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 YP_007410461.1)
- Domains: Pfam-A via hmmscan --cut_ga — FtsK_SpoIIIE (PF01580.25)
- 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
COG1674 - Curated reference: UniProt P9WNA5 (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 —
47 functional partner(s); context anchor
eccD5 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv1783|eccC5 MKRGFARPTPEKPPVIKPENIVLSTPLSIPPPEGKPWWLIVVGVVVVGLLGGMVAMVFASGSHVFGGIGSIFPLFMMVGIMMMMFRGMGGGQQQMSRPKLDAMRAQFMLMLDMLRETAQESADSMDANYRWFHPAPNTLAAAVGSPRMWERKPDGKDLNFGVVRVGVGMTRPEVTWGEPQNMPTDIELEPVTGKALQEFGRYQSVVYNLPKMVSLLVEPWYALVGEREQVLGLMRAIICQLAFSHGPDHVQMIVVSSDLDQWDWVKWLPHFGDSRRHDAAGNARMVYTSVREFAAEQAELFAGRGSFTPRHASSSAQTPTPHTVIIADVDDPQWEYVISAEGVDGVTFFDLTGSSMWTDIPERKLQFDKTGVIEALPRDRDTWMVIDDKAWFFALTDQVSIAEAEEFAQKLAQWRLAEAYEEIGQRVAHIGARDILSYYGIDDPGNIDFDSLWASRTDTMGRSRLRAPFGNRSDNGELLFLDMKSLDEGGDGPHGVMSGTTGSGKSTLVRTVIESLMLSHPPEELQFVLADLKGGSAVKPFAGVPHVSRIITDLEEDQALMERFLDALWGEIARRKAICDSAGVDDAKEYNSVRARMRARGQDMAPLPMLVVVIDEFYEWFRIMPTAVDVLDSIGRQGRAYWIHLMMASQTIESRAEKLMENMGYRLVLKARTAGAAQAAGVPNAVNLPAQAGLGYFRKSLEDIIRFQAEFLWRDYFQPGVSIDGEEAPALVHSIDYIRPQLFTNSFTPLEVSVGGPDIEPVVAQPNGEVLESDDIEGGEDEDEEGVRTPKVGTVIIDQLRKIKFEPYRLWQPPLTQPVAIDDLVNRFLGRPWHKEYGSACNLVFPIGIIDRPYKHDQPPWTVDTSGPGANVLILGAGGSGKTTALQTLICSAALTHTPQQVQFYCLAYSSTALTTVSRIPHVGEVAGPTDPYGVRRTVAELLALVRERKRSFLECGIASMEMFRRRKFGGEAGPVPDDGFGDVYLVIDNYRALAEENEVLIEQVNVIINQGPSFGVHVVVTADRESELRPPVRSGFGSRIELRLAAVEDAKLVRSRFAKDVPVKPGRGMVAVNYVRLDSDPQAGLHTLVARPALGSTPDNVFECDSVVAAVSRLTSAQAPPVRRLPARFGVEQVRELASRDTRQGVGAGGIAWAISELDLAPVYLNFAENSHLMVTGRRECGRTTTLATIMSEIGRLYAPGASSAPPPAPGRPSAQVWLVDPRRQLLTALGSDYVERFAYNLDGVVAMMGELAAALAGREPPPGLSAEELLSRSWWSGPEIFLIVDDIQQLPPGFDSPLHKAVPFVNRAADVGLHVIVTRTFGGWSSAGSDPMLRALHQANAPLLVMDADPDEGFIRGKMKGGPLPRGRGLLMAEDTGVFVQVAATEVRR