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: 42463.40 
• Atom Count: 2618 
• Residue Count: 366 
• Unique protein chains: 1

3L8X

P38 alpha kinase complexed with a pyrazolo-pyrimidine based inhibitor

• DOI: 10.2210/pdb3L8X/pdb
• Entry 3L8X supersedes 3CG2

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 2010-01-04 Released: 2010-03-02 
• Deposition Author(s): Sack, J.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.4 Å
• R-Value Free: 0.319 
• R-Value Work: 0.225 

Literature

Pyrazolo-Pyrimidines: A Novel Heterocyclic Scaffold for Potent and Selective P38 Alpha Inhibitors.

Das, J., Moquin, R.V., Pitt, S., Zhang, R., Shen, D.R., Mcintyre, K.W., Gillooly, K., Doweyko, A.M., Sack, J.S., Zhang, H., Kiefer, S.E., Kish, K., Mckinnon, M., Barrish, J.C., Dodd, J.H., Schieven, G.L., Leftheris, K.

(2008) Bioorg.Med.Chem.Lett. 18: 2652

• PubMed: 18359226 
• DOI: 10.1016/j.bmcl.2008.03.019
• Primary Citation of Related Structures:  
  3CG2


• PubMed Abstract: 
  

The synthesis and structure-activity relationships (SAR) of p38 alpha MAP kinase inhibitors based on a pyrazolo-pyrimidine scaffold are described. These studies led to the identification of compound 2x as a potent and selective inhibitor of p38 alpha MAP kinase with excellent cellular potency toward the inhibition of TNFalpha production. Compound 2x was highly efficacious in vivo in inhibiting TNFalpha production in an acute murine model of TNFalpha production. X-ray co-crystallography of a pyrazolo-pyrimidine analog 2b bound to unphosphorylated p38 alpha is also disclosed.

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Organizational Affiliation: 

Bristol-Myers Squibb Research and Development, PO Box 4000, Princeton, NJ 08543-4000, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Mitogen-activated protein kinase 14	A	366	Homo sapiens	Mutation(s): 0  Gene Names: MAPK14 (CSBP, CSBP1, CSBP2, CSPB1, MXI2, SAPK2A) EC: 2.7.11.24
Find proteins for Q16539 (Homo sapiens) Go to Gene View: MAPK14 Go to UniProtKB:  Q16539

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
N4D	A	N,4-dimethyl-3-[(1-phenyl-1H-pyrazolo[3,4-d]pyrimidin-4-yl)amino]benzamide C20 H18 N6 O OYTBZXSFNNAVKU-UHFFFAOYSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
N4D	IC50: 10 nM (100) BINDINGDB
N4D	IC50: 10 nM BINDINGMOAD
N4D	Kd: 10 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.4 Å
• R-Value Free: 0.319 
• R-Value Work: 0.225 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 67.392	α = 90.00
b = 71.148	β = 90.00
c = 73.120	γ = 90.00

Software Package:

Software Name	Purpose
BUSTER	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-01-04 
• Released Date: 2010-03-02 
• Deposition Author(s): Sack, J.S.
• This entry supersedes: 3CG2

Revision History 

• Version 1.0: 2010-03-02
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Version format compliance