7ZAY

Human heparan sulfate polymerase complex EXT1-EXT2


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structure of the human heparan sulfate polymerase complex EXT1-EXT2.

Leisico, F.Omeiri, J.Le Narvor, C.Beaudouin, J.Hons, M.Fenel, D.Schoehn, G.Coute, Y.Bonnaffe, D.Sadir, R.Lortat-Jacob, H.Wild, R.

(2022) Nat Commun 13: 7110-7110

  • DOI: https://doi.org/10.1038/s41467-022-34882-6
  • Primary Citation of Related Structures:  
    7ZAY

  • PubMed Abstract: 

    Heparan sulfates are complex polysaccharides that mediate the interaction with a broad range of protein ligands at the cell surface. A key step in heparan sulfate biosynthesis is catalyzed by the bi-functional glycosyltransferases EXT1 and EXT2, which generate the glycan backbone consisting of repeating N-acetylglucosamine and glucuronic acid units. The molecular mechanism of heparan sulfate chain polymerization remains, however, unknown. Here, we present the cryo-electron microscopy structure of human EXT1-EXT2, which reveals the formation of a tightly packed hetero-dimeric complex harboring four glycosyltransferase domains. A combination of in vitro and in cellulo mutational studies is used to dissect the functional role of the four catalytic sites. While EXT1 can catalyze both glycosyltransferase reactions, our results indicate that EXT2 might only have N-acetylglucosamine transferase activity. Our findings provide mechanistic insight into heparan sulfate chain elongation as a nonprocessive process and lay the foundation for future studies on EXT1-EXT2 function in health and disease.


  • Organizational Affiliation

    Institut de Biologie Structurale, UMR 5075, University Grenoble Alpes, CNRS, CEA, 38000, Grenoble, France.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Exostosin-1736Homo sapiensMutation(s): 0 
Gene Names: EXT1
EC: 2.4.1.224 (PDB Primary Data), 2.4.1.225 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q16394 (Homo sapiens)
Explore Q16394 
Go to UniProtKB:  Q16394
PHAROS:  Q16394
GTEx:  ENSG00000182197 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ16394
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Exostosin-2690Homo sapiensMutation(s): 0 
Gene Names: EXT2
EC: 2.4.1.224 (PDB Primary Data), 2.4.1.225 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q93063 (Homo sapiens)
Explore Q93063 
Go to UniProtKB:  Q93063
PHAROS:  Q93063
GTEx:  ENSG00000151348 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ93063
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 3
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
C
3N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE
GlyCosmos:  G15407YE
GlyGen:  G15407YE
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
UDP (Subject of Investigation/LOI)
Query on UDP

Download Ideal Coordinates CCD File 
E [auth A]URIDINE-5'-DIPHOSPHATE
C9 H14 N2 O12 P2
XCCTYIAWTASOJW-XVFCMESISA-N
NAG (Subject of Investigation/LOI)
Query on NAG

Download Ideal Coordinates CCD File 
D [auth A]2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Centre National de la Recherche Scientifique (CNRS)FranceATIP-Avenir
Agence Nationale de la Recherche (ANR)FranceANR-18-CE11- 0006-01
Agence Nationale de la Recherche (ANR)FranceANR-15-IDEX-02

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-07
    Type: Initial release