3PWI

Crystal structure of the mutant P34A of D-Glucarate dehydratase from Escherichia coli complexed with product 5-keto-4-deoxy-D-Glucarate

• PDB DOI: https://doi.org/10.2210/pdb3PWI/pdb

• Classification: LYASE
• Organism(s): Escherichia coli O157:H7 str. EC4042
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2010-12-08 Released: 2011-12-28 
• Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Lukk, T., Gerlt, J.A., Almo, S.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.23 Å
• R-Value Free: 0.252 
• R-Value Work: 0.205 
• R-Value Observed: 0.207 

Literature

Crystal structure of the mutant P34A of D-Glucarate dehydratase from Escherichia Coli complexed with product 5-keto-4-deoxy-D-Glucarate

Fedorov, A.A., Fedorov, E.V., Lukk, T., Gerlt, J.A., Almo, S.C.

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)

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: 98.95 kDa 
• Atom Count: 7,009 
• Modelled Residue Count: 881 
• Deposited Residue Count: 892 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glucarate dehydratase	A, B	446	Escherichia coli O157:H7 str. EC4042	Mutation(s): 1  Gene Names: ECH74042_A2717 EC: 4.2.1.40
UniProt
Find proteins for P0AES2 (Escherichia coli (strain K12)) Explore P0AES2  Go to UniProtKB:  P0AES2

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GLR	D [auth A], G [auth B]	2,3-DIHYDROXY-5-OXO-HEXANEDIOATE C6 H6 O7 QUURPCHWPQNNGL-ZAFYKAAXSA-L
GOL	E [auth A], H [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
MG	C [auth A], F [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.23 Å
• R-Value Free: 0.252 
• R-Value Work: 0.205 
• R-Value Observed: 0.207 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 150.784	α = 90
b = 128.925	β = 96.74
c = 71.419	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
BALBES	phasing
PHENIX	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-12-28 
Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Lukk, T., Gerlt, J.A., Almo, S.C.

Revision History  

• Version 1.0: 2011-12-28
  Type: Initial release
  
• Version 1.1: 2024-02-21
  Changes: Data collection, Database references, Derived calculations