3F03

Crystal structure of Pentaerythritol Tetranitrate Reductase complex with 1-nitrocyclohexene

• PDB DOI: https://doi.org/10.2210/pdb3F03/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Enterobacter cloacae
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-10-24 Released: 2008-12-16 
• Deposition Author(s): Roujeinikova, A.R., Toogood, H.S., Leys, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.34 Å
• R-Value Free: 0.145 
• R-Value Work: 0.115 
• R-Value Observed: 0.116 

Literature

Structure-based insight into the asymmetric bioreduction of the C=C double bond of alpha,beta-unsaturated nitroalkenes by pentaerythritol tetranitrate reductase.

Toogood, H.S., Fryszkowska, A., Hare, V., Fisher, K., Roujeinikova, A., Leys, D., Gardiner, J.M., Stephens, G.M., Scrutton, N.S.

To be published.

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: 40.08 kDa 
• Atom Count: 3,574 
• Modelled Residue Count: 362 
• Deposited Residue Count: 364 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pentaerythritol tetranitrate reductase	A [auth K]	364	Enterobacter cloacae	Mutation(s): 0  Gene Names: onr EC: 1.7.99
UniProt
Find proteins for P71278 (Enterobacter cloacae) Explore P71278  Go to UniProtKB:  P71278

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FMN	C [auth K]	FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N
NYH	B [auth K]	1-nitrocyclohexene C6 H9 N O2 DJBRXNRKYAWTBL-UHFFFAOYSA-N
IPA	E [auth K]	ISOPROPYL ALCOHOL C3 H8 O KFZMGEQAYNKOFK-UHFFFAOYSA-N
CL	D [auth K]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.34 Å
• R-Value Free: 0.145 
• R-Value Work: 0.115 
• R-Value Observed: 0.116 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.338	α = 90
b = 70.295	β = 90
c = 89.016	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-12-16 
Deposition Author(s): Roujeinikova, A.R., Toogood, H.S., Leys, D.

Revision History  

• Version 1.0: 2008-12-16
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-12-27
  Changes: Data collection, Database references, Derived calculations