3K3J

P38alpha bound to novel DFG-out compound PF-00416121

Structural Biology Knowledgebase: 3K3J SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.193

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3K3J

Classification: TRANSFERASE

Total Structure Weight: 42213.35

Macromolecule Entities
Molecule Chains Length Organism Details
Mitogen-activated protein kinase 14 A 362 Homo sapiens EC#: 2.7.11.24 IUBMB
Gene Name(s): MAPK14 Gene View CSBP CSBP1 CSBP2 CSPB1 MXI2 SAPK2A

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
F4C
Query on F4C

A 2-(4-fluorophenyl)-3-oxo-6-pyridin-4-yl-N- [2-(trifluoromethyl)benzyl]-2,3-dihydropyridazine- 4-carboxamide
C24 H16 F4 N4 O2
SZWDNHQJXXWUBD-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
I46
Query on I46

A 2-fluoro-4-[4-(4-fluorophenyl)-1H-pyrazol- 3-yl]pyridine
C14 H9 F2 N3
YJCHZVXSPFPKMX-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
F4C IC50: 2400 - >1.25e+4 nM (100) BindingDB

N/A in BindingMoad
IC50: >12500 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.193
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 66.18 α = 90.00
b = 74.72 β = 90.00
c = 77.73 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-10-02
  • Released Date: 2009-11-10
  • Deposition author(s): Kazmirski, S.L., DiNitto, J.P.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Refinement description | Details: Fixed TLS group
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4