9IJC

Crystal structure of the beta,kappa-carrageenase Cgbk16A from Wenyingzhuangia fucanilytica

• PDB DOI: https://doi.org/10.2210/pdb9IJC/pdb

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


• Deposited: 2024-06-22 Released: 2024-07-17 
• Deposition Author(s): Chang, Y., Chen, F.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 0.188 
• R-Value Work: 0.170 
• R-Value Observed: 0.171 

Starting Model: in silico

Literature

Structural insights into the substrate recognition and catalytic mechanism of a beta,kappa-carrageenase from Wenyingzhuangia fucanilytica

Chang, Y., Chen, F.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 37.28 kDa 
• Atom Count: 2,709 
• Modelled Residue Count: 281 
• Deposited Residue Count: 321 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GH16 domain-containing protein	A	321	Wenyingzhuangia fucanilytica	Mutation(s): 0  Gene Names: AXE80_10150
UniProt
Find proteins for A0A1B1Y771 (Wenyingzhuangia fucanilytica) Explore A0A1B1Y771  Go to UniProtKB:  A0A1B1Y771

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 0.188 
• R-Value Work: 0.170 
• R-Value Observed: 0.171 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.37	α = 90
b = 76.833	β = 90
c = 100.329	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
DIALS	data reduction
DIALS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-17 
Deposition Author(s): Chang, Y., Chen, F.

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Funding Organization	Location	Grant Number
Other government	China	2023YFD2100605

Revision History  

• Version 1.0: 2024-07-17
  Type: Initial release
  
• Version 1.1: 2024-07-31
  Changes: Database references, Structure summary