Crystal structure of Dfg5 from Chaetomium thermophilum in complex with alpha-1,6-mannobiose

Experimental Data Snapshot

  • Resolution: 1.30 Å
  • R-Value Free: 0.123 
  • R-Value Work: 0.102 
  • R-Value Observed: 0.103 

wwPDB Validation   3D Report Full Report

This is version 1.2 of the entry. See complete history


Structural base for the transfer of GPI-anchored glycoproteins into fungal cell walls.

Vogt, M.S.Schmitz, G.F.Varon Silva, D.Mosch, H.U.Essen, L.O.

(2020) Proc Natl Acad Sci U S A 117: 22061-22067

  • DOI: https://doi.org/10.1073/pnas.2010661117
  • Primary Citation of Related Structures:  
    6RY0, 6RY1, 6RY2, 6RY5, 6RY6, 6RY7

  • PubMed Abstract: 

    The correct distribution and trafficking of proteins are essential for all organisms. Eukaryotes evolved a sophisticated trafficking system which allows proteins to reach their destination within highly compartmentalized cells. One eukaryotic hallmark is the attachment of a glycosylphosphatidylinositol (GPI) anchor to C-terminal ω-peptides, which are used as a zip code to guide a subset of membrane-anchored proteins through the secretory pathway to the plasma membrane. In fungi, the final destination of many GPI-anchored proteins is their outermost compartment, the cell wall. Enzymes of the Dfg5 subfamily catalyze the essential transfer of GPI-anchored substrates from the plasma membrane to the cell wall and discriminate between plasma membrane-resident GPI-anchored proteins and those transferred to the cell wall (GPI-CWP). We solved the structure of Dfg5 from a filamentous fungus and used in crystallo glycan fragment screening to reassemble the GPI-core glycan in a U-shaped conformation within its binding pocket. The resulting model of the membrane-bound Dfg5•GPI-CWP complex is validated by molecular dynamics (MD) simulations and in vivo mutants in yeast. The latter show that impaired transfer of GPI-CWPs causes distorted cell-wall integrity as indicated by increased chitin levels. The structure of a Dfg5•β1,3-glycoside complex predicts transfer of GPI-CWP toward the nonreducing ends of acceptor glycans in the cell wall. In addition to our molecular model for Dfg5-mediated transglycosylation, we provide a rationale for how GPI-CWPs are specifically sorted toward the cell wall by using GPI-core glycan modifications.

  • Organizational Affiliation

    Department of Chemistry, Philipps-Universität, D-35032 Marburg, Germany.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Mannan endo-1,6-alpha-mannosidase443Thermochaetoides thermophila DSM 1495Mutation(s): 0 
Gene Names: CTHT_0020800
Membrane Entity: Yes 
Find proteins for G0S3F2 (Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
Explore G0S3F2 
Go to UniProtKB:  G0S3F2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG0S3F2
Sequence Annotations
  • Reference Sequence


Entity ID: 2
MoleculeChains Length2D Diagram Glycosylation3D Interactions
Glycosylation Resources
GlyTouCan:  G71124KE
GlyCosmos:  G71124KE
GlyGen:  G71124KE
Experimental Data & Validation

Experimental Data

  • Resolution: 1.30 Å
  • R-Value Free: 0.123 
  • R-Value Work: 0.102 
  • R-Value Observed: 0.103 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 83.415α = 90
b = 55.019β = 90.37
c = 80.119γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB987

Revision History  (Full details and data files)

  • Version 1.0: 2020-08-12
    Type: Initial release
  • Version 1.1: 2020-08-26
    Changes: Database references
  • Version 1.2: 2020-09-16
    Changes: Database references