9K1G | pdb_00009k1g

COMPLEX STRUCTURE OF ENDO-1,3-FUCANASE (FUN174Sb) FROM GH174 FAMILY WITH FUCOTETRAOSE

• PDB DOI: https://doi.org/10.2210/pdb9K1G/pdb

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


• Deposited: 2024-10-16 Released: 2024-12-18 
• 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: 2.50 Å
• R-Value Free: 
  0.286 (Depositor), 0.284 (DCC) 
• R-Value Work: 
  0.245 (Depositor), 0.246 (DCC) 
• R-Value Observed: 
  0.248 (Depositor) 

Starting Model: in silico

Literature

Complex structure of endo-1.3-fucanase (Fun174Sb) from GH174 family with fucotetraose.

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 PISA (software)

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 112.21 kDa 
• Atom Count: 7,600 
• Modeled Residue Count: 898 
• Deposited Residue Count: 994 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
endo-1.3-fucanase	A, B	497	Spartobacteria bacterium	Mutation(s): 0

Oligosaccharides

Help  

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.286 (Depositor), 0.284 (DCC) 
• R-Value Work:  0.245 (Depositor), 0.246 (DCC) 
• R-Value Observed: 0.248 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.635	α = 90
b = 92.051	β = 104.53
c = 75.806	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2024-12-18 
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: 2024-12-18
  Type: Initial release
  
• Version 2.0: 2025-07-09
  Type: Coordinate replacement
  Reason: Ligand geometry
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Refinement description, Structure summary