4ENY

Crystal Structure of Pim-1 kinase in complex with (2E,5Z)-2-(2-chlorophenylimino)-5-(4-hydroxy-3-methoxybenzylidene)thiazolidin-4-one


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.173

Literature

Macromolecules
Sequence Display for 4ENY

Classification: TRANSFERASE / INHIBITOR

Total Structure Weight: 34813.74

Macromolecule Entities
Molecule Chains Length Organism Details
Serine/threonine-protein kinase pim-1 A 298 Homo sapiens EC#: 2.7.11.1 IUBMB
Fragment: Protein kinase domain, UNP RESIDUES 120-404
Gene Name(s): PIM1 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
J19
Query on J19

A (2Z,5Z)-2-[(2-chlorophenyl)imino]-5-(4-hydroxy- 3-methoxybenzylidene)-1,3-thiazolidin-4-one
C17 H13 Cl N2 O3 S
CEYSJUACBKYCKN-DHDCSXOGSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
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)
DMS
Query on DMS

A DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
J19 N/A in BindingDB
N/A in BindingMoad
IC50: 89 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.173
  • Space Group: P 65

Unit Cell:

Length (Å) Angle (°)
a = 96.76 α = 90.00
b = 96.76 β = 90.00
c = 80.96 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-04-13
  • Released Date: 2012-08-08
  • Deposition author(s): Parker, L.J., Handa, N., Yokoyama, S.

Revision History

  • Version 1_0: 2012-08-08

    Type: Initial release

  • Version 1_1: 2012-10-03

    Type: Database references