1YI3

Crystal Structure of Pim-1 bound to LY294002

Structural Biology Knowledgebase: 1YI3 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.208

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1YI3

Classification: TRANSFERASE

Total Structure Weight: 31981.55

Macromolecule Entities
Molecule Chains Length Organism Details
Proto-oncogene serine/threonine-protein kinase Pim-1 A 273 Homo sapiens EC#: 2.7.11.1 IUBMB
Mutation: C161X, S261X
Gene Name(s): PIM1 Gene View

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
LY2
Query on LY2

A 2-MORPHOLIN-4-YL-7-PHENYL-4H-CHROMEN-4-ONE
2-(4-MORPHOLINYL)-8-PHENYL-4H-1-BENZOPYRAN- 4-ONE (Synonym)
C19 H17 N O3
CZQHHVNHHHRRDU-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
LY2 IC50: 820 - 4000 nM (100) BindingDB

IC50: 4000 nM  BindingMOAD
IC50: 4000 nM  PDBbind
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
CME
Query on CME
A L-PEPTIDE LINKING C5 H11 N O3 S2 CYS
SEP
Query on SEP
A L-PEPTIDE LINKING C3 H8 N O6 P SER

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.208
  • Space Group: P 65
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 97.65 α = 90.00
b = 97.65 β = 90.00
c = 80.72 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-01-11
  • Released Date: 2005-01-25
  • Deposition author(s): Jacobs, M.D., Black, J., Futer, O., Swenson, L., Hare, B., Fleming, M., Saxena, K.

Revision History

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