4AW5

Complex of the EphB4 kinase domain with an oxindole inhibitor

Structural Biology Knowledgebase: 4AW5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.33 Å
  • R-Value Free: 0.279
  • R-Value Work: 0.190

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4AW5

Classification: TRANSFERASE

Total Structure Weight: 33390.61

Macromolecule Entities
Molecule Chains Length Organism Details
EPHRIN TYPE-B RECEPTOR 4 A 291 Homo sapiens EC#: 2.7.10.1 IUBMB
Fragment: KINASE DOMAIN, RESIDUES 605-890
Gene Name(s): EPHB4 Gene View HTK MYK1 TYRO11

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
30K
Query on 30K

A (3Z)-5-[(1-ethylpiperidin-4-yl)amino]-3-[(5- methoxy-1H-benzimidazol-2-yl)(phenyl)methylidene]- 1,3-dihydro-2H-indol-2-one
C30 H31 N5 O2
LETIJBVXDGOQFG-DQSJHHFOSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
30K N/A in BindingDB
IC50: 765 nM  BindingMOAD
IC50: 765 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.33 Å
  • R-Value Free: 0.279
  • R-Value Work: 0.190
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 46.66 α = 90.00
b = 53.98 β = 111.06
c = 63.24 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-05-31
  • Released Date: 2012-08-01
  • Deposition author(s): Till, J.H., Stout, T.J.

Revision History

No revisions since initial release