8Z0X

Crystal structure of glyoxylate reductase from Acetobacter aceti in the apo form

• PDB DOI: https://doi.org/10.2210/pdb8Z0X/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Acetobacter aceti
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-04-10 Released: 2024-10-23 
• Deposition Author(s): Majumder, T.R., Yoshizawa, T., Inoue, M., Aono, R., Matsumura, H., Mihara, H.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.221 
• R-Value Work: 0.202 
• R-Value Observed: 0.203 

Starting Model: in silico

Literature

Crystal structure of glyoxylate reductase from Acetobacter aceti

Majumder, T.R., Yoshizawa, T., Inoue, M., Aono, R., Matsumura, H., Mihara, H.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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: Hetero 4-mer - A3B1 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 263.92 kDa 
• Atom Count: 16,816 
• Modelled Residue Count: 2,147 
• Deposited Residue Count: 2,504 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
3-hydroxyisobutyrate dehydrogenase	A, B, C, D, E, F, G, H	313	Acetobacter aceti	Mutation(s): 0  Gene Names: ghr, AAJCM20276_07180
UniProt
Find proteins for A0A6S6PLJ6 (Acetobacter aceti) Go to UniProtKB:  A0A6S6PLJ6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.221 
• R-Value Work: 0.202 
• R-Value Observed: 0.203 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.454	α = 90
b = 191.88	β = 94.99
c = 117.846	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-10-23 
Deposition Author(s): Majumder, T.R., Yoshizawa, T., Inoue, M., Aono, R., Matsumura, H., Mihara, H.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-10-23
  Type: Initial release