3TXZ | pdb_00003txz

OYE1-W116Q complexed with R-carvone

• PDB DOI: https://doi.org/10.2210/pdb3TXZ/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Saccharomyces pastorianus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2011-09-23 Released: 2012-09-26 
• Deposition Author(s): Sullivan, B., Pompeu, Y.A., Stewart, J.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.186 (Depositor), 0.184 (DCC) 
• R-Value Work: 
  0.161 (Depositor), 0.159 (DCC) 
• R-Value Observed: 
  0.164 (Depositor) 

Literature

X‑ray Crystallography Reveals How Subtle Changes Control the Orientation of Substrate Binding in an Alkene Reductase

Pompeu, Y.A., Sullivan, B., Stewart, J.D.

(2013) ACS Catal 3: 2376-2390

• DOI: https://doi.org/10.1021/cs400622e

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 45.64 kDa 
• Atom Count: 3,655 
• Modeled Residue Count: 399 
• Deposited Residue Count: 400 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NADPH dehydrogenase 1	A	400	Saccharomyces pastorianus	Mutation(s): 1  Gene Names: OYE1 EC: 1.6.99.1
UniProt
Find proteins for Q02899 (Saccharomyces pastorianus) Explore Q02899  Go to UniProtKB:  Q02899

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FMN	B [auth A]	FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N
07V	C [auth A]	(5R)-2-methyl-5-(prop-1-en-2-yl)cyclohex-2-en-1-one C10 H14 O ULDHMXUKGWMISQ-SECBINFHSA-N
MG	D [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.186 (Depositor), 0.184 (DCC) 
• R-Value Work:  0.161 (Depositor), 0.159 (DCC) 
• R-Value Observed: 0.164 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 141.362	α = 90
b = 141.362	β = 90
c = 42.687	γ = 90

Software Package:

Software Name	Purpose
HKL-3000	data collection
AMoRE	phasing
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-09-26 
Deposition Author(s): Sullivan, B., Pompeu, Y.A., Stewart, J.D.

Revision History  

• Version 1.0: 2012-09-26
  Type: Initial release
  
• Version 1.1: 2013-10-09
  Changes: Database references
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations