2XVD

EPHB4 KINASE DOMAIN INHIBITOR COMPLEX

Structural Biology Knowledgebase: 2XVD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.209
  • R-Value Work: 0.175

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2XVD

Classification: TRANSFERASE

Total Structure Weight: 34519.65

Macromolecule Entities
Molecule Chains Length Organism Details
EPHRIN TYPE-B RECEPTOR 4 A 302 Homo sapiens EC#: 2.7.10.1 IUBMB
Fragment: KINASE DOMAIN, RESIDUES 598-899
Mutation: Y774E
Gene Name(s): EPHB4 Gene View HTK MYK1 TYRO11

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
AS6
Query on AS6

A {4-METHYL-3-[(1-METHYLETHYL)(2-{[3-(METHYLSULFONYL)- 5-MORPHOLIN-4-YLPHENYL]AMINO}PYRIMIDIN-4- YL)AMINO]PHENYL}METHANOL
C26 H33 N5 O4 S
AAXNCGQOXAXDOW-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
AS6 IC50: 2 - 7 nM (99) BindingDB

IC50: 2 nM  BindingMOAD
IC50: 2 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.209
  • R-Value Work: 0.175
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 46.71 α = 90.00
b = 53.31 β = 111.75
c = 61.33 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-10-25
  • Released Date: 2011-06-08
  • Deposition author(s): Read, J., Brassington, C.A., Green, I., Mccall, E.J., Valentine, A.L.

Revision History

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