2Z1Q | pdb_00002z1q

Crystal structure of acyl CoA dehydrogenase

• PDB DOI: https://doi.org/10.2210/pdb2Z1Q/pdb

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


• Deposited: 2007-05-11 Released: 2008-05-13 
• Deposition Author(s): Hikima, T., Kawano, Y., Nodake, Y., Kamiya, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.269 (Depositor), 0.261 (DCC) 
• R-Value Work: 
  0.220 (Depositor), 0.213 (DCC) 
• R-Value Observed: 
  0.220 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of acyl CoA dehydrogenase from Thermus thermophilus HB8

Hikima, T., Kawano, Y., Nodake, Y., Kamiya, N.

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 (software)

Macromolecule Content 

• Total Structure Weight: 127.97 kDa 
• Atom Count: 8,961 
• Modeled Residue Count: 1,095 
• Deposited Residue Count: 1,154 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acyl-CoA dehydrogenase	A, B	577	Thermus thermophilus HB8	Mutation(s): 0  EC: 1.3.99.3
UniProt
Find proteins for Q5SJW0 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SJW0  Go to UniProtKB:  Q5SJW0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD	C [auth A], D [auth B]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.269 (Depositor), 0.261 (DCC) 
• R-Value Work:  0.220 (Depositor), 0.213 (DCC) 
• R-Value Observed: 0.220 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 128.854	α = 90
b = 128.854	β = 90
c = 136.1	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-05-13 
Deposition Author(s): Hikima, T., Kawano, Y., Nodake, Y., Kamiya, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2008-05-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description