2VRE

crystal structure of human peroxisomal delta3,5,delta2,4-dienoyl coa isomerase

• PDB DOI: https://doi.org/10.2210/pdb2VRE/pdb

• Classification: ISOMERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2008-03-31 Released: 2008-04-15 
• Deposition Author(s): Yue, W., Guo, K., von Delft, F., Pilka, E., Murray, J., Roos, A., Kochan, G., Bountra, C., Arrowsmith, C., Wikstrom, M., Edwards, A., Oppermann, U.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.202 
• R-Value Work: 0.167 
• R-Value Observed: 0.169 

Starting Model: experimental

Literature

Crystal Structure of Human Peroxisomal Delta3,5, Delta2,4-Dienoyl Coa Isomerase (Ech1)

Yue, W., Guo, K., von Delft, F., Pilka, E., Murray, J., Roos, A., Kochan, G., Bountra, C., Arrowsmith, C., Wikstrom, M., Edwards, A., Oppermann, U.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 98.56 kDa 
• Atom Count: 6,452 
• Modelled Residue Count: 793 
• Deposited Residue Count: 888 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DELTA(3,5)-DELTA(2,4)-DIENOYL-COA ISOMERASE	A, B, C	296	Homo sapiens	Mutation(s): 0  EC: 5.3.3
UniProt & NIH Common Fund Data Resources
Find proteins for Q13011 (Homo sapiens) Explore Q13011  Go to UniProtKB:  Q13011
GTEx:  ENSG00000104823

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	D [auth A], E [auth A], F [auth B], G [auth B], H [auth C], I [auth C]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.202 
• R-Value Work: 0.167 
• R-Value Observed: 0.169 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 127.58	α = 90
b = 137.253	β = 90
c = 96.137	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-04-15 
Deposition Author(s): Yue, W., Guo, K., von Delft, F., Pilka, E., Murray, J., Roos, A., Kochan, G., Bountra, C., Arrowsmith, C., Wikstrom, M., Edwards, A., Oppermann, U.

Revision History  

• Version 1.0: 2008-04-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2018-01-24
  Changes: Database references, Structure summary
• Version 2.0: 2023-12-13
  Changes: Atomic model, Data collection, Database references, Other, Refinement description