2J2I

CRYSTAL STRUCTURE OF THE HUMAB PIM1 IN COMPLEX WITH LY333531

Structural Biology Knowledgebase: 2J2I SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.200
  • R-Value Work: 0.179

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2J2I

Classification: TRANSFERASE

Total Structure Weight: 36068.36

Macromolecule Entities
Molecule Chains Length Organism Details
PROTO-ONCOGENE SERINE/THREONINE-PROTEIN KINASE PIM-1 B 312 Homo sapiens EC#: 2.7.11.1 IUBMB
Fragment: RESIDUES 92-403
Mutation: R250G
Gene Name(s): PIM1 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
LY4
Query on LY4

B (9R)-9-[(DIMETHYLAMINO)METHYL]-6,7,10,11- TETRAHYDRO-9H,18H-5,21:12,17-DIMETHENODIBENZO[E,K]PYRROLO[3,4- H][1,4,13]OXADIAZACYCLOHEXADECINE-18,20-DIONE
LY333531 (Synonym)
C28 H28 N4 O3
ZCBUQCWBWNUWSU-SFHVURJKSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
LY4 IC50: 200 nM (99) BindingDB
Kd: 50 - 270000 nM (99) BindingDB

IC50: 200 nM  BindingMOAD
IC50: 200 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.200
  • R-Value Work: 0.179
  • Space Group: P 65
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 98.16 α = 90.00
b = 98.16 β = 90.00
c = 80.37 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-08-16
  • Released Date: 2007-02-13
  • Deposition author(s): Debreczeni, J.E., Bullock, A.N., Von Delft, F., Sundstrom, M., Arrowsmith, C., Edwards, A., Weigelt, J., Knapp, S.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: Compliance with PDBx exchange dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor