Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 71.28 kDa 
• Atom Count: 4,390 
• Modelled Residue Count: 541 
• Deposited Residue Count: 614 
• Unique protein chains: 1

 4PP7

Highly Potent and Selective 3-N-methylquinazoline-4(3H)-one Based Inhibitors of B-RafV600E Kinase

• PDB DOI: 10.2210/pdb4PP7/pdb

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2014-02-26 Released: 2014-04-09 
• Deposition Author(s): Wenglowsky, S., Ren, L., Grina, J., Hansen, J.D., Laird, E.R., Moreno, D., Dinkel, V., Gloor, S.L., Hastings, G., Rana, S., Rasor, K., Sturgis, H.L., Voegtli, W.C., Vigers, G.P.A., Willis, B., Mathieu, S., Rudolph, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.254 
• R-Value Work: 0.195 
• R-Value Observed: 0.198 

Literature

Highly potent and selective 3-N-methylquinazoline-4(3H)-one based inhibitors of B-Raf(V600E) kinase.

Wenglowsky, S., Ren, L., Grina, J., Hansen, J.D., Laird, E.R., Moreno, D., Dinkel, V., Gloor, S.L., Hastings, G., Rana, S., Rasor, K., Sturgis, H.L., Voegtli, W.C., Vigers, G., Willis, B., Mathieu, S., Rudolph, J.

(2014) Bioorg Med Chem Lett 24: 1923-1927

• PubMed: 24675381 
• DOI: 10.1016/j.bmcl.2014.03.007
• Primary Citation of Related Structures:  
  4PP7


• PubMed Abstract: 
  

Herein we describe the design of a novel series of ATP competitive B-Raf inhibitors via structure-based methods. These 3-N-methylquinazoline-4(3H)-one based inhibitors exhibit both excellent cellular potency and striking B-Raf selectivity. Optimization led to the identification of compound 16, a potent, selective and orally available agent with excellent pharmacokinetic properties and robust tumor growth inhibition in xenograft studies. Our work also demonstrates that by replacing an aryl amide with an aryl sulfonamide, a multikinase inhibitor such as AZ-628, can be converted to a selective B-Raf inhibitor, a finding that should have broad application in kinase drug discovery.

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Organizational Affiliation: 

Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080-4990, United States.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase B-raf	A, B	307	Homo sapiens	Mutation(s): 0  Gene Names: BRAF, BRAF1, RAFB1 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for P15056 (Homo sapiens) Explore P15056  Go to UniProtKB:  P15056
PHAROS:  P15056

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
2VX	C [auth A], D [auth B]	N-{2,4-difluoro-3-[methyl(3-methyl-4-oxo-3,4-dihydroquinazolin-6-yl)amino]phenyl}propane-1-sulfonamide C19 H20 F2 N4 O3 S WWMXFNLVPRQJSD-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
2VX	BindingDB:  4PP7	IC50: min: 11, max: 62 (nM) from 2 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.254 
• R-Value Work: 0.195 
• R-Value Observed: 0.198 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.971	α = 90
b = 107.971	β = 90
c = 151.669	γ = 90

Software Package:

Software Name	Purpose
CrystalClear	data collection
MOLREP	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-04-09 
Deposition Author(s): Wenglowsky, S., Ren, L., Grina, J., Hansen, J.D., Laird, E.R., Moreno, D., Dinkel, V., Gloor, S.L., Hastings, G., Rana, S., Rasor, K., Sturgis, H.L., Voegtli, W.C., Vigers, G.P.A., Willis, B., Mathieu, S., Rudolph, J.

Revision History  

• Version 1.0: 2014-04-09
  Type: Initial release
  
• Version 1.1: 2014-05-07
  Changes: Database references