Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 142189.59 
• Atom Count: 10206 
• Residue Count: 1308 
• Unique protein chains: 1

1O7J

Atomic resolution structure of Erwinia chrysanthemi L-asparaginase

• DOI: 10.2210/pdb1O7J/pdb

• Classification: HYDROLASE
• Organism(s): Dickeya chrysanthemi


• Deposited: 2002-11-07 Released: 2002-12-04 
• Deposition Author(s): Lubkowski, J., Dauter, M., Aghaiypour, K., Wlodawer, A., Dauter, Z.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1 Å
• R-Value Free: 0.128 

Literature

Atomic Resolution Structure of Erwinia Chrysanthemi L-Asparaginase

Lubkowski, J., Dauter, M., Aghaiypour, K., Wlodawer, A., Dauter, Z.

(2003) Acta Crystallogr.,Sect.D 59: 84

• PubMed: 12499544 


• PubMed Abstract: 
  

An X-ray structure of L-asparaginase from Erwinia chrysanthemi (ErA) has been refined at 1 A resolution to an R factor of below 0.1, using data collected on a synchrotron source. With four molecules of the enzyme consisting of 327 amino acids each, this crystal contains one of the largest asymmetric units of a protein refined to date at atomic resolution. Previously, structures of ErA and of related enzymes from other bacterial sources have been refined at resolutions not exceeding 1.7 A; thus, the present structure represents a very significant improvement in the quality of the available models of these proteins and should provide a good basis for future studies of the conformational variability of proteins, identification of subtle conformational features and corroboration of the stereochemical libraries, amongst other things. L-Asparaginases, which are enzymes that catalyze the hydrolysis of L-asparagine to aspartic acid, have been used for over 30 y as therapeutic agents in the treatment of acute childhood lymphoblastic leukemia, although the details of the enzymatic reaction and substrate specificity have not yet been completely elucidated. This atomic resolution structure is a step in that direction.

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Organizational Affiliation: 

Macromolecular Crystallography Laboratory, National Cancer Institute at Frederick, Frederick, MD 21702, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
L-ASPARAGINASE	A, B, C, D	327	Dickeya chrysanthemi	Mutation(s): 0  Gene Names: ansB (asn) EC: 3.5.1.1
Find proteins for P06608 (Dickeya chrysanthemi) Go to UniProtKB:  P06608

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	A, B, C, D	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	A, D	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO	A, B, D	1,2-ETHANEDIOL ETHYLENE GLYCOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1 Å
• R-Value Free: 0.128 
• Space Group: C 1 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 106.380	α = 90.00
b = 90.350	β = 91.40
c = 127.590	γ = 90.00

Software Package:

Software Name	Purpose
HKL-2000	data reduction
SHELXL-97	refinement
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-11-07 
• Released Date: 2002-12-04 
• Deposition Author(s): Lubkowski, J., Dauter, M., Aghaiypour, K., Wlodawer, A., Dauter, Z.

Revision History 

• Version 1.0: 2002-12-04
  Type: Initial release
• Version 1.1: 2011-05-08
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance