2O3P

Crystal structure of Pim1 with Quercetin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.24 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.187

Literature

Macromolecules
Sequence Display for 2O3P

Classification: TRANSFERASE

Total Structure Weight: 34272.73

Macromolecule Entities
Molecule Chains Length Organism Details
Proto-oncogene serine/threonine-protein kinase Pim-1 A 293 Homo sapiens EC#: 2.7.11.1 IUBMB
Fragment: CATALYTIC DOMAIN
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
QUE
Query on QUE

A 3,5,7,3',4'-PENTAHYDROXYFLAVONE
QUERCETIN (Synonym)
C15 H10 O7
REFJWTPEDVJJIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IMD
Query on IMD

A IMIDAZOLE
C3 H5 N2
RAXXELZNTBOGNW-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
QUE IC50: 43 - 1100 nM (100) BindingDB
Kd: 25 nM (100) BindingDB
ΔG: -41 kJ/mol (100) BindingDB
-TΔS: -1.1 kJ/mol (100) BindingDB

IC50: 1100 nM  BindingMOAD
IC50: 1100 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.24 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.187
  • Space Group: P 65

Unit Cell:

Length (Å) Angle (°)
a = 97.76 α = 90.00
b = 97.76 β = 90.00
c = 81.18 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-12-01
  • Released Date: 2007-02-13
  • Deposition author(s): Holder, S., Zemskova, M., Zhang, C., Tabrizizad, M., Bremer, R., Neidigh, J.W., Lilly, M.B.

Revision History

  • 2008-05-01
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance