1J5P | pdb_00001j5p

Crystal structure of aspartate dehydrogenase (TM1643) from Thermotoga maritima at 1.9 A resolution

• PDB DOI: https://doi.org/10.2210/pdb1J5P/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Thermotoga maritima
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2002-06-27 Released: 2002-07-10 
• Deposition Author(s): Joint Center for Structural Genomics (JCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.260 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.224 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.224 (Depositor) 

Literature

Crystal structure of aspartate dehydrogenase (TM1643) from Thermotoga maritima at 1.9 A resolution

Joint Center for Structural Genomics (JCSG)

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: 28.8 kDa 
• Atom Count: 1,964 
• Modeled Residue Count: 235 
• Deposited Residue Count: 253 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ASPARTATE DEHYDROGENASE	A	253	Thermotoga maritima	Mutation(s): 0  Gene Names: TM1643 EC: 1.4.3.16 (PDB Primary Data), 1.4.1.21 (UniProt)
UniProt
Find proteins for Q9X1X6 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)) Explore Q9X1X6  Go to UniProtKB:  Q9X1X6

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAD	B [auth A]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.260 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.224 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.224 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M31J5P

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.2	α = 90
b = 63.2	β = 90
c = 126.2	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALA	data scaling
CCP4	data reduction
SOLVE	phasing
RESOLVE	model building
CNS	refinement
CCP4	data scaling
RESOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-07-10 
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Revision History  

• Version 1.0: 2002-07-10
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2018-07-18
  Changes: Advisory, Data collection, Database references
• Version 1.4: 2023-01-25
  Changes: Advisory, Database references, Derived calculations
• Version 1.5: 2024-05-22
  Changes: Data collection