Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 70178.98 
• Atom Count: 4418 
• Residue Count: 604 
• Unique protein chains: 1

4EQU

Human STK-10 (LOK) kinase domain in DFG-out conformation with inhibitor DSA-7

• DOI: 10.2210/pdb4EQU/pdb

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2012-04-19 Released: 2012-11-07 
• Deposition Author(s): Merritt, E.A., Larson, E.T.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.246 
• R-Value Work: 0.223 

Literature

Affinity-Based Probes Based on Type II Kinase Inhibitors.

Ranjitkar, P., Perera, B.G., Swaney, D.L., Hari, S.B., Larson, E.T., Krishnamurty, R., Merritt, E.A., Villen, J., Maly, D.J.

(2012) J.Am.Chem.Soc. 134: 19017-19025

• PubMed: 23088519 
• DOI: 10.1021/ja306035v


• PubMed Abstract: 
  

Protein kinases are key components of most mammalian signal transduction networks and are therapeutically relevant drug targets. Efforts to study protein kinase function would benefit from new technologies that are able to profile kinases in complex proteomes. Here, we describe active site-directed probes for profiling kinases in whole cell extracts and live cells. These probes contain general ligands that stabilize a specific inactive conformation of the ATP-binding sites of protein kinases, as well as trifluoromethylphenyl diazirine and alkyne moieties that allow covalent modification and enrichment of kinases, respectively. A diverse group of serine/threonine and tyrosine kinases were identified as specific targets of these probes in whole cell extracts. In addition, a number of kinase targets were selectively labeled in live cells. Our chemical proteomics approach should be valuable for interrogating protein kinase active sites in physiologically relevant environments.

---

Organizational Affiliation: 

Department of Chemistry, University of Washington, Seattle, Washington 98195, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Serine/threonine-protein kinase 10	A, B	302	Homo sapiens	Mutation(s): 0  Gene Names: STK10 (LOK) EC: 2.7.11.1
Find proteins for O94804 (Homo sapiens) Go to Gene View: STK10 Go to UniProtKB:  O94804

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
CA	A, B	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
G6I	A, B	N-{3-[(3-{4-[(4-methoxyphenyl)amino]-1,3,5-triazin-2-yl}pyridin-2-yl)amino]-4-methylphenyl}-3-(trifluoromethyl)benzamide C30 H24 F3 N7 O2 FLZNVZVIUIDCOF-UHFFFAOYSA-N
1PE	B	PENTAETHYLENE GLYCOL PEG400 C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.246 
• R-Value Work: 0.223 
• Space Group: P 1 2₁ 1

Unit Cell:

Length (Å)	Angle (°)
a = 61.810	α = 90.00
b = 49.040	β = 101.42
c = 133.760	γ = 90.00

Software Package:

Software Name	Purpose
PDB_EXTRACT	data extraction
REFMAC	refinement
BALBES	phasing
SCALA	data scaling
MOSFLM	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-04-19 
• Released Date: 2012-11-07 
• Deposition Author(s): Merritt, E.A., Larson, E.T.

Revision History 

• Version 1.0: 2012-11-07
  Type: Initial release
• Version 1.1: 2012-11-14
  Type: Structure summary
• Version 1.2: 2012-12-19
  Type: Database references