3RU5

Silver Metallated Hen Egg White Lysozyme at 1.35 A

• PDB DOI: https://doi.org/10.2210/pdb3RU5/pdb

• Classification: HYDROLASE
• Organism(s): Gallus gallus
• Mutation(s): No 


• Deposited: 2011-05-04 Released: 2011-11-23 
• Deposition Author(s): Leeper, T.C., Panzner, M.J., Bilinovich, S.M.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.215 
• R-Value Work: 0.192 
• R-Value Observed: 0.193 

Literature

Silver metallation of hen egg white lysozyme: X-ray crystal structure and NMR studies.

Panzner, M.J., Bilinovich, S.M., Youngs, W.J., Leeper, T.C.

(2011) Chem Commun (Camb) 47: 12479-12481

• PubMed: 22042312 
• DOI: https://doi.org/10.1039/c1cc15908a
• Primary Citation of Related Structures:  
  3RU5


• PubMed Abstract: 
  

  The X-ray crystal structure, NMR binding studies, and enzyme activity of silver(I) metallated hen egg white lysozyme are presented. Primary bonding of silver is observed through His15 with secondary bonding interactions coming from nearby Arg14 and Asp87. A covalently bound nitrate completes a four coordinate binding pocket.

---

Organizational Affiliation: 

Center for Silver Therapeutics Research, Department of Chemistry, The University of Akron, Akron, OH 44325-3601, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 15.05 kDa 
• Atom Count: 1,192 
• Modelled Residue Count: 129 
• Deposited Residue Count: 129 
• Unique protein chains: 1

Macromolecules

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

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AG	B [auth A]	SILVER ION Ag FOIXSVOLVBLSDH-UHFFFAOYSA-N
EDO	J [auth A], M [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
NO3	C [auth A], D [auth A], K [auth A], L [auth A], N [auth A], O [auth A]	NITRATE ION N O3 NHNBFGGVMKEFGY-UHFFFAOYSA-N
NA	E [auth A], F [auth A], G [auth A], H [auth A], I [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.215 
• R-Value Work: 0.192 
• R-Value Observed: 0.193 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.798	α = 90
b = 77.798	β = 90
c = 37.629	γ = 90

Software Package:

Software Name	Purpose
APEX	data collection
PHASER	phasing
REFMAC	refinement
SAINT	data reduction
APEX	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-11-23 
Deposition Author(s): Leeper, T.C., Panzner, M.J., Bilinovich, S.M.

Revision History  

• Version 1.0: 2011-11-23
  Type: Initial release
  
• Version 1.1: 2018-04-04
  Changes: Data collection
• Version 1.2: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description