8K3X

S. cerevisiae Chs1 in complex with Nikkomycin Z


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.86 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure, catalysis, chitin transport, and selective inhibition of chitin synthase.

Chen, D.D.Wang, Z.B.Wang, L.X.Zhao, P.Yun, C.H.Bai, L.

(2023) Nat Commun 14: 4776-4776

  • DOI: https://doi.org/10.1038/s41467-023-40479-4
  • Primary Citation of Related Structures:  
    8K3P, 8K3Q, 8K3R, 8K3T, 8K3U, 8K3V, 8K3W, 8K3X

  • PubMed Abstract: 

    Chitin is one of the most abundant natural biopolymers and serves as a critical structural component of extracellular matrices, including fungal cell walls and insect exoskeletons. As a linear polymer of β-(1,4)-linked N-acetylglucosamine, chitin is synthesized by chitin synthases, which are recognized as targets for antifungal and anti-insect drugs. In this study, we determine seven different cryo-electron microscopy structures of a Saccharomyces cerevisiae chitin synthase in the absence and presence of glycosyl donor, acceptor, product, or peptidyl nucleoside inhibitors. Combined with functional analyses, these structures show how the donor and acceptor substrates bind in the active site, how substrate hydrolysis drives self-priming, how a chitin-conducting transmembrane channel opens, and how peptidyl nucleoside inhibitors inhibit chitin synthase. Our work provides a structural basis for understanding the function and inhibition of chitin synthase.


  • Organizational Affiliation

    Department of Biochemistry and Biophysics, School of Basic Medical Sciences, Peking University, Beijing, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Chitin synthase 1
A, B
1,131Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: CHS1
EC: 2.4.1.16
Membrane Entity: Yes 
UniProt
Find proteins for P08004 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P08004 
Go to UniProtKB:  P08004
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08004
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
BGI (Subject of Investigation/LOI)
Query on BGI

Download Ideal Coordinates CCD File 
C [auth A],
D [auth B]
(2S)-{[(2S,3S,4S)-2-amino-4-hydroxy-4-(5-hydroxypyridin-2-yl)-3-methylbutanoyl]amino}[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxyoxolan-2-yl]acetic acid (non-preferred name)
C20 H25 N5 O10
WWJFFVUVFNBJTN-VHDFTHOZSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.86 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.18.2_3874:

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32171212

Revision History  (Full details and data files)

  • Version 1.0: 2023-10-18
    Type: Initial release
  • Version 1.1: 2023-11-01
    Changes: Database references
  • Version 1.2: 2024-05-08
    Changes: Database references