9S11 | pdb_00009s11

Lectin/toxin 2 from Coprinopsis cinerea


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.16 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history

Literature

Structure and function of a fungal AB toxin-like chimerolectin involved in anti-nematode defense.

Schmieder, S.S.Cordara, G.Kersten, F.Steiner, K.Samim, C.H.Plaza, D.F.Ali-Ahmad, A.Boeggild, A.Karlsen, J.L.Sokolowska, B.O.Boesen, T.Krengel, U.Kunzler, M.

(2026) EMBO J 

  • DOI: https://doi.org/10.1038/s44318-026-00812-1
  • Primary Citation Related Structures: 
    9S11

  • PubMed Abstract: 

    Fungal defense against predators largely relies on protein toxins, many of which are lectins. We previously showed that the production of the nematotoxin CCTX2 is upregulated in the Agaricomycete Coprinopsis cinerea upon predation by nematodes. Here, we classify CCTX2 as the founding member of a previously unknown family of fungal chimerolectins. Cryo-EM analysis to 3.2 Å resolution reveals five domains, with the four N-terminal β-trefoil fold (BTF) domains cradling a C-terminal domain, which exhibits an unusual α + β protein fold with some similarity to killer protein 4. Mutational analysis suggests that both terminal domains are functionally required for nematotoxicity. The first two BTF domains enable CCTX2 binding to glycosphingolipids with LacNAc or LacdiNAc glycoepitopes on nematode intestinal epithelial cells, whereas the biochemical function of the C-terminal domain remains unknown. Experiments in the model nematode Caenorhabditis elegans demonstrate that CCTX2 exploits the endocytic and retrograde trafficking machinery of cells in the intestinal epithelium to exert its toxicity and access the yet-to-be-identified intracellular target of the non-lectin domain. Our findings thus show that the molecular architecture and mode of action of CCTX2 is reminiscent of bacterial and plant AB toxins.


  • Organizational Affiliation
    • Institute of Microbiology, Department of Biology, ETH Zürich, Zürich, Switzerland.

Macromolecule Content 

  • Total Structure Weight: 91.04 kDa 
  • Atom Count: 6,276 
  • Modeled Residue Count: 787 
  • Deposited Residue Count: 803 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Ricin B lectin domain-containing protein803Coprinopsis cinerea okayama7#130Mutation(s): 0 
Gene Names: CC1G_10077
UniProt
Find proteins for A8NDT7 (Coprinopsis cinerea (strain Okayama-7 / 130 / ATCC MYA-4618 / FGSC 9003))
Explore A8NDT7 
Go to UniProtKB:  A8NDT7
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA8NDT7
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.16 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.2-5419
RECONSTRUCTIONcryoSPARC3.1

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Norwegian Research CouncilNorway245828
Swiss National Science FoundationSwitzerland31003A-130671

Revision History  (Full details and data files)

  • Version 1.0: 2026-03-18
    Type: Initial release
  • Version 1.1: 2026-06-10
    Changes: Data collection, Database references