3EQG

X-ray structure of the human mitogen-activated protein kinase kinase 1 (MEK1) in a ternary complex with PD, ADP AND MG2P

Structural Biology Knowledgebase: 3EQG SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.273
  • R-Value Work: 0.207

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3EQG

Classification: TRANSFERASE

Total Structure Weight: 41110.38

Macromolecule Entities
Molecule Chains Length Organism Details
Dual specificity mitogen-activated protein kinase kinase 1 A 360 Homo sapiens EC#: 2.7.12.2 IUBMB
Fragment: Protein kinase domain, UNP residues 35-393
Mutation: S298N, S299K, Y300F
Gene Name(s): MAP2K1 Gene View MEK1 PRKMK1

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
4BM
Query on 4BM

A N-{[(2R)-2,3-dihydroxypropyl]oxy}-3,4-difluoro- 2-[(2-fluoro-4-iodophenyl)amino]benzamide
C16 H14 F3 I N2 O4
SUDAHWBOROXANE-SECBINFHSA-N
Ligand Explorer
 
JSmol
ADP
Query on ADP

A ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer
 
JSmol
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
4BM IC50: 0.6 - 5.2 nM (99) BindingDB
Kd: 0.4 - 31 nM (99) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.273
  • R-Value Work: 0.207
  • Space Group: P 61 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 76.00 α = 90.00
b = 76.00 β = 90.00
c = 222.32 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-09-30
  • Released Date: 2009-02-24
  • Deposition author(s): Fischmann, T.O.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values