2EEZ | pdb_00002eez

Crystal structure of alanine dehydrogenase from themus thermophilus

• PDB DOI: https://doi.org/10.2210/pdb2EEZ/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Thermus thermophilus HB8
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2007-02-19 Released: 2007-04-13 
• Deposition Author(s): Kumarevel, T.S., Karthe, P., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.71 Å
• R-Value Free: 
  0.264 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.220 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.220 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of alanine dehydrogenase from themus thermophilus

Kumarevel, T.S., Karthe, P., Kuramitsu, S., Yokoyama, S.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

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

Macromolecule Content 

• Total Structure Weight: 232.05 kDa 
• Atom Count: 15,522 
• Modeled Residue Count: 2,058 
• Deposited Residue Count: 2,214 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alanine dehydrogenase	A, B [auth C], C [auth D], D [auth E], E [auth F], F [auth G]	369	Thermus thermophilus HB8	Mutation(s): 0  Gene Names: ttha0216 EC: 1.4.1.1
UniProt
Find proteins for Q5SLS7 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SLS7  Go to UniProtKB:  Q5SLS7

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.71 Å
• R-Value Free:  0.264 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.220 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.220 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 133.94	α = 90
b = 133.24	β = 90
c = 147.24	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
BSS	data collection
HKL-2000	data reduction
HKL-2000	data scaling
CCP4	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-04-13 
Deposition Author(s): Kumarevel, T.S., Karthe, P., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2007-04-13
  Type: Initial release
  
• Version 1.1: 2007-12-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Source and taxonomy, Version format compliance
• Version 1.3: 2023-10-25
  Changes: Data collection, Database references, Refinement description