3EEG | pdb_00003eeg

Crystal structure of a 2-isopropylmalate synthase from Cytophaga hutchinsonii

• PDB DOI: https://doi.org/10.2210/pdb3EEG/pdb

• Classification: TRANSFERASE
• Organism(s): Cytophaga hutchinsonii ATCC 33406
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-09-04 Released: 2008-09-16 
• Deposition Author(s): Sugadev, R., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.78 Å
• R-Value Free: 
  0.298 (Depositor), 0.291 (DCC) 
• R-Value Work: 
  0.245 (Depositor), 0.243 (DCC) 
• R-Value Observed: 
  0.245 (Depositor) 

Literature

Crystal structure of a 2-isopropylmalate synthase from Cytophaga hutchinsonii

Sugadev, R., Burley, S.K., Swaminathan, S.

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: 72.28 kDa 
• Atom Count: 4,170 
• Modeled Residue Count: 540 
• Deposited Residue Count: 650 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2-isopropylmalate synthase	A, B	325	Cytophaga hutchinsonii ATCC 33406	Mutation(s): 0  Gene Names: leuA, CHU_3741 EC: 2.3.3.13

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: 2.78 Å
• R-Value Free:  0.298 (Depositor), 0.291 (DCC) 
• R-Value Work:  0.245 (Depositor), 0.243 (DCC) 
• R-Value Observed: 0.245 (Depositor) 

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 118.666	α = 90
b = 118.666	β = 90
c = 154.91	γ = 120

Software Package:

Software Name	Purpose
CBASS	data collection
SHELXD	phasing
SHARP	phasing
ARP/wARP	model building
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-09-16 
Deposition Author(s): Sugadev, R., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2008-09-16
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-02-10
  Changes: Database references, Derived calculations, Structure summary
• Version 1.3: 2024-11-20
  Changes: Data collection, Database references, Structure summary