4WAS

STRUCTURE OF THE ETR1P/NADP/CROTONYL-COA COMPLEX

• PDB DOI: https://doi.org/10.2210/pdb4WAS/pdb

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


• Deposited: 2014-08-31 Released: 2015-03-18 
• Deposition Author(s): Quade, N., Voegeli, B., Rosenthal, R., Capitani, G., Erb, T.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.224 
• R-Value Work: 0.188 
• R-Value Observed: 0.188 

Starting Model: experimental

Literature

The use of ene adducts to study and engineer enoyl-thioester reductases.

Rosenthal, R.G., Vogeli, B., Quade, N., Capitani, G., Kiefer, P., Vorholt, J.A., Ebert, M.O., Erb, T.J.

(2015) Nat Chem Biol 11: 398-400

• PubMed: 25867044 
• DOI: https://doi.org/10.1038/nchembio.1794
• Primary Citation of Related Structures:  
  4W99, 4WAS


• PubMed Abstract: 
  

  An improved understanding of enzymes' catalytic proficiency and stereoselectivity would further enable applications in chemistry, biocatalysis and industrial biotechnology. We use a chemical probe to dissect individual catalytic steps of enoyl-thioester reductases (Etrs), validating an active site tyrosine as the cryptic proton donor and explaining how it had eluded definitive identification. This information enabled the rational redesign of Etr, yielding mutants that create products with inverted stereochemistry at wild type-like turnover frequency.

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Organizational Affiliation: 

Institute of Microbiology, ETH (Swiss Federal Institute of Technology) Zurich, Zurich, Switzerland.

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)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 123.4 kDa 
• Atom Count: 9,097 
• Modelled Residue Count: 1,092 
• Deposited Residue Count: 1,092 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Enoyl-[acyl-carrier-protein] reductase [NADPH, B-specific] 1, mitochondrial	A, B, C	364	Candida tropicalis	Mutation(s): 0  Gene Names: ETR1 EC: 1.3.1.10 (PDB Primary Data), 1.3.1.38 (PDB Primary Data), 1.3.1.104 (UniProt)
UniProt
Find proteins for Q8WZM3 (Candida tropicalis) Explore Q8WZM3  Go to UniProtKB:  Q8WZM3

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
COO	E [auth A], G [auth B], I [auth C]	CROTONYL COENZYME A C25 H40 N7 O17 P3 S KFWWCMJSYSSPSK-XBTRWLRFSA-N
NAP	D [auth A], F [auth B], H [auth C]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.224 
• R-Value Work: 0.188 
• R-Value Observed: 0.188 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 147.92	α = 90
b = 106.14	β = 98.41
c = 94.41	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-03-18 
Deposition Author(s): Quade, N., Voegeli, B., Rosenthal, R., Capitani, G., Erb, T.J.

Revision History  

• Version 1.0: 2015-03-18
  Type: Initial release
  
• Version 1.1: 2015-04-15
  Changes: Database references
• Version 1.2: 2015-04-22
  Changes: Database references
• Version 1.3: 2015-05-27
  Changes: Database references
• Version 2.0: 2024-01-10
  Changes: Atomic model, Data collection, Database references, Refinement description