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 generated by PISA (software)

Biological Assembly Evidence: authors reported there is no experimental evidence

Macromolecule Content

• Total Structure Weight: 41770.76 
• Atom Count: 2629 
• Residue Count: 360 
• Unique protein chains: 1

5O8V

Covalent Inhibitor 4a bound to the Lipid Pocket of p38alpha Mutant S251C

• DOI: 10.2210/pdb5O8V/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): 1 


• Deposited: 2017-06-14 Released: 2017-09-06 
• Deposition Author(s): Buehrmann, M., Rauh, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.269 
• R-Value Work: 0.206 

Literature

Covalent Lipid Pocket Ligands Targeting p38 alpha MAPK Mutants.

Buhrmann, M., Hardick, J., Weisner, J., Quambusch, L., Rauh, D.

(2017) Angew. Chem. Int. Ed. Engl. 56: 13232-13236

• PubMed: 28834017 
• DOI: 10.1002/anie.201706345
• Primary Citation of Related Structures:  
  5O8U


• PubMed Abstract: 
  

A chemical genetic approach is presented to covalently target a unique lipid binding pocket in the protein kinase p38α, whose function is not yet known. Based on a series of cocrystal structures, a library of 2-arylquinazolines that were decorated with electrophiles were designed and synthesized to covalently target tailored p38α mutants containing artificially introduced cysteine residues. Matching protein-ligand pairs were identified by MS analysis and further validated by MS/MS studies and protein crystallography. The covalent ligands that emerged from this approach showed excellent selectivity towards a single p38α mutant and will be applicable as suitable probes in future studies of biological systems to dissect the function of the lipid pocket by means of pharmacological perturbations.

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Organizational Affiliation: 

Faculty of Chemistry and Chemical Biology, TU Dortmund University, Otto-Hahn-Strasse 4a, 44227, Dortmund, Germany.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Mitogen-activated protein kinase 14	A	360	Homo sapiens	Mutation(s): 1  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
9O2	A	~{N}-[3-[7-azanyl-4-(2-phenylethylamino)quinazolin-2-yl]phenyl]propanamide C25 H25 N5 O VKNJKOQEMPCERA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.269 
• R-Value Work: 0.206 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 65.200	α = 90.00
b = 74.250	β = 90.00
c = 77.820	γ = 90.00

Software Package:

Software Name	Purpose
XDS	data reduction
PHASER	phasing
REFMAC	refinement
XSCALE	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2017-06-14 
• Released Date: 2017-09-06 
• Deposition Author(s): Buehrmann, M., Rauh, D.

Revision History 

• Version 1.0: 2017-09-06
  Type: Initial release
• Version 1.1: 2017-10-25
  Type: Database references
• Version 1.2: 2018-05-02
  Type: Data collection