Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

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

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 42842.04 
• Atom Count: 2966 
• Residue Count: 368 
• Unique protein chains: 1

3G75

Crystal structure of Staphylococcus aureus Gyrase B co-complexed with 4-METHYL-5-[3-(METHYLSULFANYL)-1H-PYRAZOL-5-YL]-2-THIOPHEN-2-YL-1,3-THIAZOLE inhibitor

• DOI: 10.2210/pdb3G75/pdb

• Classification: Isomerase/Isomerase inhibitor
• Organism(s): Staphylococcus aureus
• Expression System: Escherichia coli


• Deposited: 2009-02-09 Released: 2010-02-09 
• Deposition Author(s): Wei, Y., Charifson, P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• R-Value Free: 0.340 
• R-Value Work: 0.244 

Literature

Discovery of pyrazolthiazoles as novel and potent inhibitors of bacterial gyrase.

Ronkin, S.M., Badia, M., Bellon, S., Grillot, A.L., Gross, C.H., Grossman, T.H., Mani, N., Parsons, J.D., Stamos, D., Trudeau, M., Wei, Y., Charifson, P.S.

(2010) Bioorg.Med.Chem.Lett. 20: 2828-2831

• PubMed: 20356737 
• DOI: 10.1016/j.bmcl.2010.03.052
• Primary Citation of Related Structures:  
  3G7E, 3G7B


• PubMed Abstract: 
  

Bacterial DNA gyrase is an attractive target for the investigation of new antibacterial agents. Inhibitors of the GyrB subunit, which contains the ATP-binding site, are described in this communication. Novel, substituted 5-(1H-pyrazol-3-yl)thiazole compounds were identified as inhibitors of bacterial gyrase. Structure-guided optimization led to greater enzymatic potency and moderate antibacterial potency. Data are presented for the demonstration of selective enzyme inhibition of Escherichia coli GyrB over Staphylococcus aureus GyrB.

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Organizational Affiliation: 

Vertex Pharmaceuticals Inc., 130 Waverly Street, Cambridge, MA 02139, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
DNA gyrase subunit B	A, B	184	Staphylococcus aureus	Mutation(s): 0  Gene Names: gyrB EC: 5.6.2.2
Find proteins for P0A0K8 (Staphylococcus aureus) Go to UniProtKB:  P0A0K8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
B48	A, B	4-methyl-5-[3-(methylsulfanyl)-1H-pyrazol-5-yl]-2-thiophen-2-yl-1,3-thiazole C12 H11 N3 S3 QVFLVBFBDVWAJG-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• R-Value Free: 0.340 
• R-Value Work: 0.244 
• Space Group: C 1 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 145.470	α = 90.00
b = 57.600	β = 97.95
c = 50.940	γ = 90.00

Software Package:

Software Name	Purpose
CNX	refinement
ADSC	data collection
AMoRE	phasing
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-02-09 
• Released Date: 2010-02-09 
• Deposition Author(s): Wei, Y., Charifson, P.

Revision History 

• Version 1.0: 2010-02-09
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Version format compliance
• Version 1.2: 2013-07-03
  Type: Database references