7EZI

Rice L-galactose dehydrogenase (apo form)

• PDB DOI: https://doi.org/10.2210/pdb7EZI/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Oryza sativa Japonica Group
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2021-06-01 Released: 2021-06-23 
• Deposition Author(s): Momma, M., Fujimoto, Z.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free: 0.187 
• R-Value Work: 0.152 

Starting Model: experimental

Literature

Crystal structure of rice L-galactose dehydrogenase

Momma, M., Fujimoto, Z.

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

Macromolecule Content

• Total Structure Weight: 35.32 kDa 
• Atom Count: 2,770 
• Modelled Residue Count: 323 
• Deposited Residue Count: 324 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
L-galactose dehydrogenase	A	324	Oryza sativa Japonica Group	Mutation(s): 0
UniProt
Find proteins for Q2QQV2 (Oryza sativa subsp. japonica) Explore Q2QQV2  Go to UniProtKB:  Q2QQV2

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free: 0.187 
• R-Value Work: 0.152 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.745	α = 90
b = 54.877	β = 102.268
c = 56.753	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-06-23 
Deposition Author(s): Momma, M., Fujimoto, Z.

Revision History  

• Version 1.0: 2021-06-23
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Database references, Derived calculations, Refinement description