1WCZ | pdb_00001wcz

Crystal structure of an alkaline form of v8 protease from Staphylococcus aureus

• PDB DOI: https://doi.org/10.2210/pdb1WCZ/pdb

• Classification: HYDROLASE
• Organism(s): Staphylococcus aureus
• Mutation(s): No 


• Deposited: 2004-05-10 Released: 2004-06-01 
• Deposition Author(s): Yamada, K., Ohta, M., Hasegawa, T., Torii, K., Murakami, M., Kouyama, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.221 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.205 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.212 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of an alkaline form of v8 protease from Staphylococcus aureus

Yamada, K., Ohta, M., Hasegawa, T., Torii, K., Murakami, M., Kouyama, K.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 29.09 kDa 
• Atom Count: 1,817 
• Modelled Residue Count: 215 
• Deposited Residue Count: 268 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutamyl endopeptidase	A	268	Staphylococcus aureus	Mutation(s): 0  EC: 3.4.21.19
UniProt
Find proteins for P0C1U8 (Staphylococcus aureus) Explore P0C1U8  Go to UniProtKB:  P0C1U8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.221 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.205 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.212 (Depositor) 

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.29	α = 90
b = 61.29	β = 90
c = 221.13	γ = 120

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
CNS	refinement
CCP4	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-06-01 
Deposition Author(s): Yamada, K., Ohta, M., Hasegawa, T., Torii, K., Murakami, M., Kouyama, K.

Revision History  

• Version 1.0: 2004-06-01
  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: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description