3D7Z

Crystal Structure of P38 Kinase in Complex with a biphenyl amide inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.174

Literature

Macromolecules
Sequence Display for 3D7Z

Classification: TRANSFERASE

Total Structure Weight: 41895.79

Macromolecule Entities
Molecule Chains Length Organism Details
Mitogen-activated protein kinase 14 A 360 Homo sapiens EC#: 2.7.11.24 IUBMB
Gene Name(s): MAPK14 Gene View CSBP CSBP1 CSBP2 CSPB1 MXI2 SAPK2A
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GK5
Query on GK5

A N~3~-cyclopropyl-N~4~'-(cyclopropylmethyl)- 6-methylbiphenyl-3,4'-dicarboxamide
4'-biphenyldicarboxamide, (Synonym)
C22 H24 N2 O2
BOPSUAHGQHFKGG-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
GK5 IC50: 18 - 1584.89 nM (100) BindingDB
Ki: 9 - 12.59 nM (100) BindingDB

Ki: 12 nM  BindingMOAD
Ki: 12 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
CSO
Query on CSO
A L-PEPTIDE LINKING C3 H7 N O3 S CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.174
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 45.63 α = 90.00
b = 86.10 β = 90.00
c = 124.81 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-05-22
  • Released Date: 2008-07-22
  • Deposition author(s): Somers, D.O., Patel, S.

Revision History

  • 2011-07-13
    Type: Advisory, Refinement description, Version format compliance