6JMS

CJP38, a beta-1,3-glucanase and allergen of Cryptomeria japonica pollen

• PDB DOI: https://doi.org/10.2210/pdb6JMS/pdb

• Classification: HYDROLASE
• Organism(s): Cryptomeria japonica
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-03-13 Released: 2020-05-06 
• Deposition Author(s): Takashima, T., Numata, T., Fukamizo, T., Ohnuma, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.168 
• R-Value Work: 0.148 
• R-Value Observed: 0.149 

Starting Model: experimental

Literature

CJP38, a beta-1,3-glucanase and allergen of Cryptomeria japonica pollen

Takashima, T., Fukamizo, T., Ohnuma, T., Numata, T.

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: 35.9 kDa 
• Atom Count: 2,871 
• Modelled Residue Count: 320 
• Deposited Residue Count: 327 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pollen allergen CJP38	A	327	Cryptomeria japonica	Mutation(s): 0  EC: 3.2.1.39
UniProt
Find proteins for Q588B8 (Cryptomeria japonica) Explore Q588B8  Go to UniProtKB:  Q588B8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	B [auth A], C [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.168 
• R-Value Work: 0.148 
• R-Value Observed: 0.149 
• Space Group: P 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.423	α = 90
b = 71.423	β = 90
c = 63.447	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-05-06 
Deposition Author(s): Takashima, T., Numata, T., Fukamizo, T., Ohnuma, T.

Revision History  

• Version 1.0: 2020-05-06
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description