4WGG | pdb_00004wgg

STRUCTURE OF THE TERNARY COMPLEX OF A ZINGIBER OFFICINALE DOUBLE BOND REDUCTASE IN COMPLEX WITH NADP AND CONIFERYL ALDEHYDE

• PDB DOI: https://doi.org/10.2210/pdb4WGG/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Zingiber officinale
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-09-18 Released: 2015-09-30 
• Deposition Author(s): Collery, J., Langlois d'Estaintot, B., Buratto, J., Granier, T., Gallois, B., Willis, M.A., Sang, Y., Flores-Sanchez, I.J., Gang, D.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.279 (Depositor), 0.278 (DCC) 
• R-Value Work: 
  0.190 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Starting Model: experimental

Literature

STRUCTURE OF ZINGIBER OFFICINALE DOUBLE BOND REDUCTASE

Buratto, J., Langlois d'Estaintot, B., Granier, T., Gallois, B., Willis, M.A., Sang, Y., Flores-Sanchez, I.J., Gang, D.R.

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: 80.43 kDa 
• Atom Count: 5,818 
• Modeled Residue Count: 698 
• Deposited Residue Count: 704 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Double Bond Reductase	A, B	352	Zingiber officinale	Mutation(s): 0
UniProt
Find proteins for A0A096LNF0 (Zingiber officinale) Explore A0A096LNF0  Go to UniProtKB:  A0A096LNF0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAP	C [auth A], E [auth B]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N
CIY	D [auth A]	(2E)-3-(4-hydroxy-3-methoxyphenyl)prop-2-enal C10 H10 O3 DKZBBWMURDFHNE-NSCUHMNNSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.279 (Depositor), 0.278 (DCC) 
• R-Value Work:  0.190 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.748	α = 90
b = 77.889	β = 90
c = 155.882	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-09-30 
Deposition Author(s): Collery, J., Langlois d'Estaintot, B., Buratto, J., Granier, T., Gallois, B., Willis, M.A., Sang, Y., Flores-Sanchez, I.J., Gang, D.R.

Revision History  

• Version 1.0: 2015-09-30
  Type: Initial release
  
• Version 1.1: 2019-06-12
  Changes: Data collection, Database references, Structure summary
• Version 1.2: 2024-01-10
  Changes: Data collection, Database references, Refinement description