1SZQ

Crystal Structure of 2-methylcitrate dehydratase

• PDB DOI: https://doi.org/10.2210/pdb1SZQ/pdb

• Classification: STRUCTURAL GENOMICS, LYASE
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2004-04-06 Released: 2004-04-27 
• Deposition Author(s): Rajashankar, K.R., Kniewel, R., Solorzano, V., Lima, C.D., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.247 
• R-Value Work: 0.204 
• R-Value Observed: 0.204 

Starting Model: experimental

Literature

Crystal structure of 2-methylcitrate dehydratase

Rajashankar, K.R., Kniewel, R., Solorzano, V., Lima, C.D.

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)

Macromolecule Content

• Total Structure Weight: 109.15 kDa 
• Atom Count: 7,600 
• Modelled Residue Count: 946 
• Deposited Residue Count: 966 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2-methylcitrate dehydratase	A, B	483	Escherichia coli	Mutation(s): 12  Gene Names: PRPD, B0334 EC: 4.2.1.79 (PDB Primary Data), 4.2.1.3 (UniProt)
UniProt
Find proteins for P77243 (Escherichia coli (strain K12)) Explore P77243  Go to UniProtKB:  P77243

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.247 
• R-Value Work: 0.204 
• R-Value Observed: 0.204 
• Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 97.579	α = 90
b = 97.579	β = 90
c = 219.75	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-04-27 
Deposition Author(s): Rajashankar, K.R., Kniewel, R., Solorzano, V., Lima, C.D., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2004-04-27
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2021-02-03
  Changes: Database references, Derived calculations, Structure summary
• Version 1.4: 2024-04-03
  Changes: Data collection, Database references, Refinement description
• Version 1.5: 2024-11-20
  Changes: Structure summary