4LMU

Crystal structure of Pim1 in complex with the inhibitor Quercetin (resulting from displacement of SKF86002)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.38 Å
  • R-Value Free: 0.204
  • R-Value Work: 0.170

Literature

Macromolecules
Sequence Display for 4LMU

Classification: TRANSFERASE / TRANSFERASE INHIBITOR

Total Structure Weight: 34582.06

Macromolecule Entities
Molecule Chains Length Organism Details
Serine/threonine-protein kinase pim-1 A 298 Homo sapiens EC#: 2.7.11.1 IUBMB
Fragment: UNP residues 120-404
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)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
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

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.38 Å
  • R-Value Free: 0.204
  • R-Value Work: 0.170
  • Space Group: P 65

Unit Cell:

Length (Å) Angle (°)
a = 97.42 α = 90.00
b = 97.42 β = 90.00
c = 80.58 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-07-11
  • Released Date: 2014-02-12
  • Deposition author(s): Parker, L.J., Tanaka, A., Handa, N., Honda, K., Tomabechi, Y., Shirouzu, M., Yokoyama, S.

Revision History

No revisions since initial release