3E8N

X-ray structure of the human mitogen-activated protein kinase kinase 1 (MEK1) complexed with a potent inhibitor RDEA119 and MgATP

Structural Biology Knowledgebase: 3E8N SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.219

Literature

Macromolecules
Sequence Display for 3E8N

Classification: TRANSFERASE

Total Structure Weight: 39034.75

Macromolecule Entities
Molecule Chains Length Organism Details
Dual specificity mitogen-activated protein kinase kinase 1 A 341 Homo sapiens EC#: 2.7.12.2 IUBMB
Gene Name(s): MAP2K1 Gene View MEK1 PRKMK1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
VRA
Query on VRA

A N-{3,4-difluoro-2-[(2-fluoro-4-iodophenyl)amino]- 6-methoxyphenyl}-1-[(2S)-2,3-dihydroxypropyl]cyclopropanesulfonamide
C19 H20 F3 I N2 O5 S
RDSACQWTXKSHJT-NSHDSACASA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ATP
Query on ATP

A ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
VRA N/A in BindingDB
IC50: 19 nM  BindingMOAD
IC50: 19 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.219
  • Space Group: P 62
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 82.26 α = 90.00
b = 82.26 β = 90.00
c = 129.78 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-08-20
  • Released Date: 2009-09-01
  • Deposition author(s): Yan, S., Wang, Z.M.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4