1S9I

X-ray structure of the human mitogen-activated protein kinase kinase 2 (MEK2)in a complex with ligand and MgATP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.364 
  • R-Value Work: 0.290 
  • R-Value Observed: 0.294 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


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

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

  • 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 ...

    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.


    Organizational Affiliation

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



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Dual specificity mitogen-activated protein kinase kinase 2A, B354Homo sapiensMutation(s): 0 
Gene Names: MAP2K2PRKMK2MEK2MKK2
EC: 2.7.1.37 (PDB Primary Data), 2.7.12.2 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P36507 (Homo sapiens)
Explore P36507 
Go to UniProtKB:  P36507
PHAROS:  P36507
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
5EA
Query on 5EA

Download Ideal Coordinates CCD File 
E [auth A], H [auth B]5-{3,4-DIFLUORO-2-[(2-FLUORO-4-IODOPHENYL)AMINO]PHENYL}-N-(2-MORPHOLIN-4-YLETHYL)-1,3,4-OXADIAZOL-2-AMINE
C20 H19 F3 I N5 O2
LZZYEMSEMRUPIM-UHFFFAOYSA-N
 Ligand Interaction
ATP
Query on ATP

Download Ideal Coordinates CCD File 
D [auth A], G [auth B]ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
C [auth A], F [auth B]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.364 
  • R-Value Work: 0.290 
  • R-Value Observed: 0.294 
  • Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 161.888α = 90
b = 161.888β = 90
c = 122.986γ = 120
Software Package:
Software NamePurpose
HKL-2000data collection
TRUNCATEdata reduction
MOLREPphasing
REFMACrefinement
HKL-2000data reduction
CCP4data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • 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: Version format compliance