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.

Macromolecule Content

• Total Structure Weight: 39.02 kDa 
• Atom Count: 2429 
• Modelled Residue Count: 289 
• Deposited Residue Count: 341 
• Unique protein chains: 1

1S9J

X-ray structure of the human mitogen-activated protein kinase kinase 1 (MEK1) in a complex with ligand and MgATP

• PDB DOI: 10.2210/pdb1S9J/pdb

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


• Deposited: 2004-02-04 Released: 2004-11-23 
• Deposition Author(s): Ohren, J.F., Chen, H., Pavlovsky, A., Whitehead, C., Yan, C., McConnell, P., Delaney, A., Dudley, D.T., Sebolt-Leopold, J., Hasemann, C.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.269 
• R-Value Work: 0.245 
• R-Value Observed: 0.246 

Literature

Structures of human MAP kinase kinase 1 (MEK1) and MEK2 describe novel noncompetitive kinase inhibition.

Ohren, J.F., Chen, H., Pavlovsky, A., Whitehead, C., Zhang, E., Kuffa, P., Yan, C., McConnell, P., Spessard, C., Banotai, C., Mueller, W.T., Delaney, A., Omer, C., Sebolt-Leopold, J., Dudley, D.T., Leung, I.K., Flamme, C., Warmus, J., Kaufman, M., Barrett, S., Tecle, H., Hasemann, C.A.

(2004) Nat Struct Mol Biol 11: 1192-1197

• PubMed: 15543157 
• DOI: 10.1038/nsmb859
• Primary Citation of Related Structures:  
  1S9I, 1S9J


• PubMed Abstract: 
  

MEK1 and MEK2 are closely related, dual-specificity tyrosine/threonine protein kinases found in the Ras/Raf/MEK/ERK mitogen-activated protein kinase (MAPK) signaling pathway. Approximately 30% of all human cancers have a constitutively activated MAPK pathway, and constitutive activation of MEK1 results in cellular transformation. Here we present the X-ray structures of human MEK1 and MEK2, each determined as a ternary complex with MgATP and an inhibitor to a resolution of 2.4 A and 3.2 A, respectively. The structures reveal that MEK1 and MEK2 each have a unique inhibitor-binding pocket adjacent to the MgATP-binding site. The presence of the potent inhibitor induces several conformational changes in the unphosphorylated MEK1 and MEK2 enzymes that lock them into a closed but catalytically inactive species. Thus, the structures reported here reveal a novel, noncompetitive mechanism for protein kinase inhibition.

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Organizational Affiliation: 

Department of Discovery Technologies, Pfizer Global Research & Development, 2800 Plymouth Road, Ann Arbor, Michigan 48105, USA.

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: MEK1, MAP2K1, PRKMK1 EC: 2.7.1.37 (PDB Primary Data), 2.7.12.2 (UniProt)
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
BBM	D [auth A]	5-BROMO-N-(2,3-DIHYDROXYPROPOXY)-3,4-DIFLUORO-2-[(2-FLUORO-4-IODOPHENYL)AMINO]BENZAMIDE C16 H13 Br F3 I N2 O4 XXSSGBYXSKOLAM-QMMMGPOBSA-N
ATP	C [auth A]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N
MG	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.269 
• R-Value Work: 0.245 
• R-Value Observed: 0.246 
• Space Group: P 6₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.591	α = 90
b = 81.591	β = 90
c = 129.213	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
CCP4	data scaling
CNX	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-02-04 
• Released Date: 2004-11-23 
Deposition Author(s): Ohren, J.F., Chen, H., Pavlovsky, A., Whitehead, C., Yan, C., McConnell, P., Delaney, A., Dudley, D.T., Sebolt-Leopold, J., Hasemann, C.A.

Revision History  

• Version 1.0: 2004-11-23
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance