8YA7 | pdb_00008ya7

endo-1,3-fucanase Fun168A,complex with fucotetraose

• PDB DOI: https://doi.org/10.2210/pdb8YA7/pdb

• Classification: HYDROLASE
• Organism(s): Wenyingzhuangia fucanilytica
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-02-07 Released: 2024-02-28 
• Deposition Author(s): Chen, G.N., Chang, Y.G.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.99 Å
• R-Value Free: 
  0.254 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.195 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Literature

Strucutre of endo-1,3-fucanase Fun168A complex with fucotetrose at 1.99 Angstroms resolution.

Chen, G.N., Chang, Y.G.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by (software)

Macromolecule Content 

• Total Structure Weight: 49.23 kDa 
• Atom Count: 3,455 
• Modeled Residue Count: 371 
• Deposited Residue Count: 423 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
endo-1,3-fucanase	A	423	Wenyingzhuangia fucanilytica	Mutation(s): 0  Gene Names: AXE80_10060
UniProt
Find proteins for A0A1B1Y779 (Wenyingzhuangia fucanilytica) Explore A0A1B1Y779  Go to UniProtKB:  A0A1B1Y779

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-L-fucopyranose-(1-3)-2,4-di-O-sulfo-alpha-L-fucopyranose-(1-3)-2-O-sulfo-alpha-L-fucopyranose-(1-3)-2-O-sulfo-alpha-L-fucopyranose	B	4	N/A	N/A

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.99 Å
• R-Value Free:  0.254 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.195 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.017	α = 90
b = 67.29	β = 90
c = 239.817	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-02-28 
Deposition Author(s): Chen, G.N., Chang, Y.G.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	U22A20542

Revision History  

• Version 1.0: 2024-02-28
  Type: Initial release