2CVO

Crystal structure of putative N-acetyl-gamma-glutamyl-phosphate reductase (AK071544) from rice (Oryza sativa)

• PDB DOI: https://doi.org/10.2210/pdb2CVO/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Oryza sativa
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2005-06-10 Released: 2005-12-06 
• Deposition Author(s): Nonaka, T., Kita, A., Miura-Ohnuma, J., Katoh, E., Inagaki, N., Yamazaki, T., Miki, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.213 
• R-Value Work: 0.171 

Starting Model: experimental

Literature

Crystal structure of putative N-acetyl-gamma-glutamyl-phosphate reductase (AK071544) from rice (Oryza sativa)

Nonaka, T., Kita, A., Miura-Ohnuma, J., Katoh, E., Inagaki, N., Yamazaki, T., Miki, K.

(2005) Proteins 61: 1137-1140

• PubMed: 16240442 
• DOI: https://doi.org/10.1002/prot.20679
• Primary Citation of Related Structures:  
  2CVO

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Organizational Affiliation: 

Department of Chemistry, Graduate School of Science, Kyoto University, Kyoto, Japan.

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)

Macromolecule Content

• Total Structure Weight: 160.01 kDa 
• Atom Count: 11,554 
• Modelled Residue Count: 1,389 
• Deposited Residue Count: 1,464 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
putative Semialdehyde dehydrogenase	A, B, C, D	366	Oryza sativa	Mutation(s): 1  Gene Names: AK071544 EC: 1.2.1.38
UniProt
Find proteins for Q6AV34 (Oryza sativa subsp. japonica) Explore Q6AV34  Go to UniProtKB:  Q6AV34

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSO	A, B, C, D	L-PEPTIDE LINKING	C3 H7 N O3 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.213 
• R-Value Work: 0.171 
• Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 86.112	α = 90
b = 86.112	β = 90
c = 316.333	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-12-06 
Deposition Author(s): Nonaka, T., Kita, A., Miura-Ohnuma, J., Katoh, E., Inagaki, N., Yamazaki, T., Miki, K.

Revision History  

• Version 1.0: 2005-12-06
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.4: 2023-11-15
  Changes: Data collection
• Version 1.5: 2024-11-06
  Changes: Structure summary