Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

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

Macromolecule Content

• Total Structure Weight: 14526.13 
• Atom Count: 1100 
• Residue Count: 129 
• Unique protein chains: 1

4J1B

X-ray structure of the adduct between hen egg white lysozyme and AziRu (black crystal)

• DOI: 10.2210/pdb4J1B/pdb

• Classification: HYDROLASE
• Organism(s): Gallus gallus


• Deposited: 2013-02-01 Released: 2013-04-03 
• Deposition Author(s): Vergara, A., Merlino, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.66 Å
• R-Value Free: 0.246 
• R-Value Work: 0.187 

Literature

Interaction of Anticancer Ruthenium Compounds with Proteins: High-Resolution X-ray Structures and Raman Microscopy Studies of the Adduct between Hen Egg White Lysozyme and AziRu.

Vergara, A., D'Errico, G., Montesarchio, D., Mangiapia, G., Paduano, L., Merlino, A.

(2013) Inorg.Chem. 52: 4157-4159

• PubMed: 23517183 
• DOI: 10.1021/ic4004142
• Primary Citation of Related Structures:  
  4J1A


• PubMed Abstract: 
  

The binding properties of AziRu, a ruthenium(III) complex with high antiproliferative activity, toward a hen egg white lysozyme have been investigated by X-ray crystallography and Raman microscopy. The data provide clear evidence on the mechanism of AziRu-protein adduct formation and of ligand exchange in the crystal state.

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Organizational Affiliation: 

Department of Chemical Sciences, University of Naples Federico II, Napoli, Italy.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Lysozyme C	A	129	Gallus gallus	Mutation(s): 0  Gene Names: LYZ EC: 3.2.1.17
Find proteins for P00698 (Gallus gallus) Go to Gene View: LYZ Go to UniProtKB:  P00698

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
NA	A	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N
RU	A	RUTHENIUM ION Ru BPEVHDGLPIIAGH-UHFFFAOYSA-N
CL	A	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.66 Å
• R-Value Free: 0.246 
• R-Value Work: 0.187 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 78.009	α = 90.00
b = 78.009	β = 90.00
c = 37.192	γ = 90.00

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
CNS	phasing
HKL-2000	data collection
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-02-01 
• Released Date: 2013-04-03 
• Deposition Author(s): Vergara, A., Merlino, A.

Revision History 

• Version 1.0: 2013-04-03
  Type: Initial release
• Version 1.1: 2013-05-08
  Type: Database references