Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 40.38 kDa 
• Atom Count: 3,056 
• Modelled Residue Count: 349 
• Deposited Residue Count: 349 
• Unique protein chains: 1

 3S3I

p38 kinase crystal structure in complex with small molecule inhibitor

• PDB DOI: 10.2210/pdb3S3I/pdb

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


• Deposited: 2011-05-18 Released: 2012-04-04 
• Deposition Author(s): Segarra, V., Aiguade, J., Roca, R., Fisher, M., Lamers, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.258 
• R-Value Work: 0.229 
• R-Value Observed: 0.233 

Literature

Novel triazolopyridylbenzamides as potent and selective p38 alpha inhibitors.

Aiguade, J., Balague, C., Carranco, I., Caturla, F., Dominguez, M., Eastwood, P., Esteve, C., Gonzalez, J., Lumeras, W., Orellana, A., Preciado, S., Roca, R., Vidal, L., Vidal, B.

(2012) Bioorg Med Chem Lett 22: 3431-3436

• PubMed: 22521646 
• DOI: 10.1016/j.bmcl.2012.03.099
• Primary Citation of Related Structures:  
  3S3I


• PubMed Abstract: 
  

A new class of p38α inhibitors based on a biaryl-triazolopyridine scaffold was investigated. X-ray crystallographic data of the initial lead compound cocrystallised with p38α was crucial in order to uncover a unique binding mode of the inhibitor to the hinge region via a pair of water molecules. Synthesis and SAR was directed towards the improvement of binding affinity, as well as ADME properties for this new class of p38α inhibitors and ultimately afforded compounds showing good in vivo efficacy.

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Organizational Affiliation: 

Almirall Research Center, Almirall SA, Ctra. Laureà Miró 408, E-08980 Sant, Feliu de Llobregat, Barcelona, Spain. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitogen-activated protein kinase 14	A	349	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
CQ0	B [auth A]	3-(3-tert-butyl[1,2,4]triazolo[4,3-a]pyridin-7-yl)-N-cyclopropyl-4-methylbenzamide C21 H24 N4 O QOUXRSOLEJEKEB-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
CQ0	PDBBind:  3S3I	IC50: 16 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.258 
• R-Value Work: 0.229 
• R-Value Observed: 0.233 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.28	α = 90
b = 84.96	β = 90
c = 123.51	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
CrystalClear	data collection
CrystalClear	data reduction
CrystalClear	data scaling
Coot	model building
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-04-04 
Deposition Author(s): Segarra, V., Aiguade, J., Roca, R., Fisher, M., Lamers, M.

Revision History  

• Version 1.0: 2012-04-04
  Type: Initial release
  
• Version 1.1: 2013-08-28
  Changes: Database references