1IVI

Crystal Structure of pig dihydrolipoamide dehydrogenase

• PDB DOI: https://doi.org/10.2210/pdb1IVI/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Sus scrofa
• Mutation(s): No 


• Deposited: 2002-03-15 Released: 2003-03-15 
• Deposition Author(s): Toyoda, T., Kobayashi, R., Sekiguchi, T., Koike, K., Koike, M., Takenaka, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 8.00 Å
• R-Value Work: 0.378 

Literature

Crystallization and preliminary X-ray analysis of pig E3, lipoamide dehydrogenase.

Toyoda, T., Kobayashi, R., Sekiguchi, T., Koike, K., Koike, M., Takenaka, A.

(1998) Acta Crystallogr D Biol Crystallogr 54: 982-985

• PubMed: 9757113 
• DOI: https://doi.org/10.1107/s090744499800033x
• Primary Citation of Related Structures:  
  1IVI


• PubMed Abstract: 
  

  Pig heart lipoamide dehydrogenase was crystallized by the hanging-drop vapor-diffusion method. X-ray diffraction patterns show that the hexagonal crystals have unit-cell dimensions of a = b = 359. 3, c = 140.5 A. The crystal structure has been preliminarily solved by the molecular-replacement method in the space group P6322. Three dimeric molecules have been found in the asymmetric unit, one of them located on the crystallographic twofold axis.

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Organizational Affiliation: 

Department of Life Science, Faculty of Bioscience and Biotechnology, Tokyo Institute of Technology, Midori-ku, Yokohama 226, Japan.

Biological Assembly 1  

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

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 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Macromolecule Content

• Total Structure Weight: 203.49 kDa 
• Atom Count: 2,390 
• Modelled Residue Count: 2,390 
• Deposited Residue Count: 2,390 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
dihydrolipoamide dehydrogenase	A, B [auth D], C [auth B], D [auth E], E [auth C]	478	Sus scrofa	Mutation(s): 0  EC: 1.8.1.4

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 8.00 Å
• R-Value Work: 0.378 
• Space Group: P 6₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 359.3	α = 90
b = 359.3	β = 90
c = 140.5	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALA	data scaling
AMoRE	phasing
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-03-15 
Deposition Author(s): Toyoda, T., Kobayashi, R., Sekiguchi, T., Koike, K., Koike, M., Takenaka, A.

Revision History  

• Version 1.0: 2003-03-15
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-12-27
  Changes: Database references