4DGG

c-SRC kinase domain in complex with RM-1-176

Structural Biology Knowledgebase: 4DGG SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.65 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.208

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4DGG

Classification: TRANSFERASE

Total Structure Weight: 66341.67

Macromolecule Entities
Molecule Chains Length Organism Details
Proto-oncogene tyrosine-protein kinase Src A, B 286 Gallus gallus EC#: 2.7.10.2 IUBMB
Fragment: kinase domain (UNP residues 251-533)
Gene Name(s): SRC Gene View

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
I76
Query on I76

A, B 3-{6-[(3-chlorobenzyl)oxy]naphthalen-2-yl}- 1-(propan-2-yl)-1H-pyrazolo[3,4-d]pyrimidin- 4-amine
C25 H22 Cl N5 O
MGARWHQGMCYTAL-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
I76 N/A in BindingDB
N/A in BindingMoad
IC50: 800 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.65 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.208
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 42.17 α = 78.73
b = 63.48 β = 88.48
c = 74.00 γ = 89.93

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-01-25
  • Released Date: 2012-10-10
  • Deposition author(s): Merritt, E.A., Larson, E.T.

Revision History

  • 2013-01-02
    Type: Citation | Details: Citation update
  • 2012-11-21
    Type: Citation | Details: Citation update