2ZC8

Crystal structure of N-Acylamino Acid Racemase from Thermus thermophilus HB8

• PDB DOI: https://doi.org/10.2210/pdb2ZC8/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Thermus thermophilus HB8
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2007-11-05 Released: 2008-02-26 
• Deposition Author(s): Hayashida, M., Kim, S.H., Takeda, K., Hisano, T., Miki, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 
  0.204 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.169 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.169 (Depositor) 

Literature

Crystal structure of N-acylamino acid racemase from Thermus thermophilus HB8

Hayashida, M., Kim, S.H., Takeda, K., Hisano, T., Miki, K.

(2008) Proteins 71: 519-523

• PubMed: 18214979 
• DOI: https://doi.org/10.1002/prot.21926
• Primary Citation of Related Structures:  
  2ZC8

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Organizational Affiliation: 

RIKEN SPring-8 Center at Harima Institute, Sayo-cho, Sayo-gun, Hyogo 679-5148, Japan.

Biological Assembly 1  

Global Symmetry: Dihedral - D4  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 82.14 kDa 
• Atom Count: 6,213 
• Modelled Residue Count: 736 
• Deposited Residue Count: 738 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
N-acylamino acid racemase	A, B	369	Thermus thermophilus HB8	Mutation(s): 0  EC: 5.1.1 (UniProt), 4.2.1.113 (UniProt)
UniProt
Find proteins for Q5SJX8 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SJX8  Go to UniProtKB:  Q5SJX8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free:  0.204 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.169 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.169 (Depositor) 

Space Group: I 4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 136.709	α = 90
b = 136.709	β = 90
c = 86.664	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-02-26 
Deposition Author(s): Hayashida, M., Kim, S.H., Takeda, K., Hisano, T., Miki, K.

Revision History  

• Version 1.0: 2008-02-26
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.2: 2024-03-13
  Changes: Data collection, Database references