3MVL

P38 Alpha Map Kinase complexed with pyrrolotriazine inhibitor 7K

• PDB DOI:  https://doi.org/10.2210/pdb3MVL/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-05-04 Released: 2010-10-13 
• Deposition Author(s): Sack, J.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.335 
• R-Value Work: 0.227 
• R-Value Observed: 0.233 

Literature

Discovery of 4-(5-(Cyclopropylcarbamoyl)-2-Methylphenylamino)-5-Methyl-Npropylpyrrolo[1,2-F][1,2,4] Triazine-6-Carboxamide (Bms-582949), a Clinical P38 Map Kinase Inhibitor for the Treatment of Inflammatory Diseases

Liu, C., Lin, J., Wrobleski, S.T., Lin, S., Hynes, J., Wu, H., Dyckman, A.J., Li, T., Wityak, J., Gillooly, K.M., Pitt, S., Shen, D.R., Zhang, R.F., McIntyre, K.W., Salter-Cid, L., Shuster, D.J., Zhang, H., Marathe, P.H., Doweyko, A.M., Sack, J.S., Kiefer, S.E., Kish, K.F., Newitt, J.A., McKinnon, M., Dodd, J.H., Barrish, J.C., Schieven, G.L., Leftheris, K.

(2010) J Med Chem 53: 6629-6639

• PubMed: 20804198 
• DOI: https://doi.org/10.1021/jm100540x
• Primary Citation of Related Structures:  
  3MVL, 3MVM


• PubMed Abstract: 
  

The discovery and characterization of 7k (BMS-582949), a highly selective p38α MAP kinase inhibitor that is currently in phase II clinical trials for the treatment of rheumatoid arthritis, is described. A key to the discovery was the rational substitution of N-cyclopropyl for N-methoxy in 1a, a previously reported clinical candidate p38α inhibitor. Unlike alkyl and other cycloalkyls, the sp(2) character of the cyclopropyl group can confer improved H-bonding characteristics to the directly substituted amide NH. Inhibitor 7k is slightly less active than 1a in the p38α enzymatic assay but displays a superior pharmacokinetic profile and, as such, was more effective in both the acute murine model of inflammation and pseudoestablished rat AA model. The binding mode of 7k with p38α was confirmed by X-ray crystallographic analysis.

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Organizational Affiliation: 

Bristol-Myers Squibb Research and Development, P.O. Box 4000, Princeton, New Jersey 08543-4000, USA. [e-mail]

Biological Assembly 1  

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

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

Biological Assembly 2  

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

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

Macromolecule Content

• Total Structure Weight: 85.02 kDa 
• Atom Count: 5,667 
• Modelled Residue Count: 678 
• Deposited Residue Count: 732 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitogen-activated protein kinase 14	A, B	366	Homo sapiens	Mutation(s): 0  Gene Names: CSBP, CSBP1, CSBP2, CSPB1, MAPK14, MXI2, SAPK2A EC: 2.7.11.24
UniProt & NIH Common Fund Data Resources
Find proteins for Q16539 (Homo sapiens) Explore Q16539  Go to UniProtKB:  Q16539
PHAROS:  Q16539

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
38P	C [auth A], D [auth B]	4-{[5-(cyclopropylcarbamoyl)-2-methylphenyl]amino}-5-methyl-N-propylpyrrolo[2,1-f][1,2,4]triazine-6-carboxamide C22 H26 N6 O2 GDTQLZHHDRRBEB-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
38P	PDBBind:  3MVL	IC50: 13 (nM) from 1 assay(s)
	BindingDB:  3MVL	IC50: 13 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.335 
• R-Value Work: 0.227 
• R-Value Observed: 0.233 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.54	α = 90
b = 71.68	β = 90.01
c = 72.82	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-10-13 
Deposition Author(s): Sack, J.S.

Revision History  

• Version 1.0: 2010-10-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance