Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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: 38.86 kDa 
• Atom Count: 2381 
• Modelled Residue Count: 291 
• Deposited Residue Count: 341 
• Unique protein chains: 1

4ARK

CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF HUMAN MAP KINASE KINASE 1 (MEK1) IN COMPLEX WITH A SMALL MOLECULE INHIBITOR AND ADP

• PDB DOI: 10.2210/pdb4ARK/pdb

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


• Deposited: 2012-04-24 Released: 2013-03-06 
• Deposition Author(s): Hartung, I.V., Hitchcock, M., Puehler, F., Neuhaus, R., Scholz, A., Hammer, S., Petersen, K., Siemeister, G., Brittain, D., Hillig, R.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.211 
• R-Value Work: 0.172 
• R-Value Observed: 0.174 

Literature

Optimization of Allosteric Mek Inhibitors - Part 1: Venturing Into Unexplored Sar Territories

Hartung, I.V., Hitchcock, M., Puehler, F., Neuhaus, R., Scholz, A., Hammer, S., Petersen, K., Siemeister, G., Brittain, D., Hillig, R.C.

(2013) Bioorg Med Chem Lett 23: 2384

• PubMed: 23474388 
• DOI: 10.1016/j.bmcl.2013.02.028
• Primary Citation of Related Structures:  
  4ARK


• PubMed Abstract: 
  

Using PD325901 as a starting point for identifying novel allosteric MEK inhibitors with high cell potency and long-lasting target inhibition in vivo, truncation of its hydroxamic ester headgroup was combined with incorporation of alkyl and aryl ethers at the neighboring ring position. Whereas alkoxy side chains did not yield sufficient levels of cell potency, specifically substituted aryloxy groups allowed for high enzymatic and cellular potencies. Sulfamide 28 was identified as a highly potent MEK inhibitor with nanomolar cell potency against B-RAF (V600E) as well as Ras-mutated cell lines, high metabolic stability and resulting long half-lives. It was efficacious against B-RAF as well as K-Ras driven xenograft models and showed-despite being orally bioavailable and not a P-glycoprotein substrate-much lower brain/plasma exposure ratios than PD325901.

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Organizational Affiliation: 

Medicinal Chemistry, Bayer HealthCare AG, 13353 Berlin, Germany. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 1	A	341	Homo sapiens	Mutation(s): 0  Gene Names: MAP2K1, MEK1, PRKMK1 EC: 2.7.12.2
UniProt & NIH Common Fund Data Resources
Find proteins for Q02750 (Homo sapiens) Explore Q02750  Go to UniProtKB:  Q02750
PHAROS:  Q02750 GTEx:  ENSG00000169032

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
M3K	D [auth A]	2-([3R-3,4-dihydroxybutyl]oxy)-4-fluoro-6-[(2-fluoro-4-iodophenyl)amino]benzamide C17 H17 F2 I N2 O4 HNTGGMMWHHPHAE-LLVKDONJSA-N
ADP	B [auth A]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
M3K	PDBBind:  4ARK	IC50: 63 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.211 
• R-Value Work: 0.172 
• R-Value Observed: 0.174 
• Space Group: P 6₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.411	α = 90
b = 82.411	β = 90
c = 130.238	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
REFMAC	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-04-24 
• Released Date: 2013-03-06 
Deposition Author(s): Hartung, I.V., Hitchcock, M., Puehler, F., Neuhaus, R., Scholz, A., Hammer, S., Petersen, K., Siemeister, G., Brittain, D., Hillig, R.C.

Revision History  

• Version 1.0: 2013-03-06
  Type: Initial release
  
• Version 1.1: 2013-04-03
  Changes: Database references
• Version 1.2: 2013-04-17
  Changes: Database references
• Version 1.3: 2016-12-14
  Changes: Data collection