2CY8

Crystal structure of D-phenylglycine aminotransferase (D-PhgAT) from Pseudomonas strutzeri ST-201

• PDB DOI: https://doi.org/10.2210/pdb2CY8/pdb

• Classification: TRANSFERASE
• Organism(s): Stutzerimonas stutzeri
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-07-05 Released: 2006-09-26 
• Deposition Author(s): Kongsaeree, P., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.223 
• R-Value Work: 0.184 
• R-Value Observed: 0.186 

Literature

Crystal structure of D-phenylglycine aminotransferase (D-PhgAT) from Pseudomonas strutzeri ST-201

Kongsaeree, P., Shirouzu, M., Yokoyama, S.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 49.03 kDa 
• Atom Count: 3,185 
• Modelled Residue Count: 402 
• Deposited Residue Count: 453 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
D-phenylglycine aminotransferase	A	453	Stutzerimonas stutzeri	Mutation(s): 0
UniProt
Find proteins for Q6VY99 (Stutzerimonas stutzeri) Explore Q6VY99  Go to UniProtKB:  Q6VY99

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.223 
• R-Value Work: 0.184 
• R-Value Observed: 0.186 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.684	α = 90
b = 74.684	β = 90
c = 147.411	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-09-26 
Deposition Author(s): Kongsaeree, P., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2006-09-26
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2024-03-13
  Changes: Data collection, Database references