2YV3 | pdb_00002yv3

Crystal Structure of Aspartate Semialdehyde Dehydrogenase from Thermus thermophilus HB8

• PDB DOI: https://doi.org/10.2210/pdb2YV3/pdb

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


• Deposited: 2007-04-07 Released: 2007-10-09 
• Deposition Author(s): Kagawa, W., Fujikawa, N., Kurumizaka, H., Bessho, Y., Ellis, M.J., Antonyuk, S.V., Strange, R.W., Hasnain, S.S., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.368 (Depositor), 0.369 (DCC) 
• R-Value Work: 
  0.303 (Depositor), 0.303 (DCC) 
• R-Value Observed: 
  0.303 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Aspartate Semialdehyde Dehydrogenase from Thermus thermophilus HB8

Kagawa, W., Fujikawa, N., Kurumizaka, H., Bessho, Y., Ellis, M.J., Antonyuk, S.V., Strange, R.W., Hasnain, S.S., Kuramitsu, S., Yokoyama, S.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 72.25 kDa 
• Atom Count: 5,107 
• Modeled Residue Count: 656 
• Deposited Residue Count: 662 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aspartate-semialdehyde dehydrogenase	A, B	331	Thermus thermophilus HB8	Mutation(s): 0  EC: 1.2.1.11
UniProt
Find proteins for Q5SKU8 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SKU8  Go to UniProtKB:  Q5SKU8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.368 (Depositor), 0.369 (DCC) 
• R-Value Work:  0.303 (Depositor), 0.303 (DCC) 
• R-Value Observed: 0.303 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 125.167	α = 90
b = 125.167	β = 90
c = 116.463	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-10-09 
Deposition Author(s): Kagawa, W., Fujikawa, N., Kurumizaka, H., Bessho, Y., Ellis, M.J., Antonyuk, S.V., Strange, R.W., Hasnain, S.S., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2007-10-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Derived calculations, Source and taxonomy, Version format compliance
• Version 1.2: 2023-10-25
  Changes: Data collection, Database references, Refinement description