3P8I

Y351F mutant of pentaerythritol tetranitrate reductase containing a bound acetate molecule

• PDB DOI: https://doi.org/10.2210/pdb3P8I/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Enterobacter cloacae
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2010-10-14 Released: 2011-04-06 
• Deposition Author(s): Toogood, H.S., Scrutton, N.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.19 Å
• R-Value Free: 0.147 
• R-Value Work: 0.129 
• R-Value Observed: 0.130 

Starting Model: experimental

Literature

Active site modifications in pentaerythritol tetranitrate reductase can lead to improved product enantiopurity, decreased by-product formation and altered stereochemical outcome in reactions with a,b-unsaturated nitroolefins

Fryszkowska, A., Toogood, H.S., Sakuma, M., Stephens, G.M., Gardiner, J.M., Scrutton, N.S.

(2011) Z für Theol Kirche 

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: 40.03 kDa 
• Atom Count: 3,646 
• Modelled Residue Count: 362 
• Deposited Residue Count: 365 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pentaerythritol tetranitrate reductase	A	365	Enterobacter cloacae	Mutation(s): 1  Gene Names: onr, PETNR EC: 1.6.99.1
UniProt
Find proteins for P71278 (Enterobacter cloacae) Explore P71278  Go to UniProtKB:  P71278

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FMN	B [auth A]	FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N
ACT	C [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.19 Å
• R-Value Free: 0.147 
• R-Value Work: 0.129 
• R-Value Observed: 0.130 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.685	α = 90
b = 68.838	β = 90
c = 88.915	γ = 90

Software Package:

Software Name	Purpose
d*TREK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
d*TREK	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-04-06 
Deposition Author(s): Toogood, H.S., Scrutton, N.S.

Revision History  

• Version 1.0: 2011-04-06
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description