3UMW Transferase Inhibitor date Nov 14, 2011
title Crystal Structure Of Pim1 Kinase In Complex With Inhibitor ( Indazol-3-Yl)Methylene]-6-Methoxy-7-(Piperazin-1-Ylmethyl)B 3(2h)-One
authors L.J.Parker, N.Handa, S.Yokoyama
compound source
Molecule: Proto-Oncogene Serinethreonine-Protein Kinase Pi
Chain: A
Fragment: Kinase Domain (Unp Residues 120-404)
Ec: 2.7.11.1
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Gene: Pim1
Expression_system: Cell-Free Protein Synthesis
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcr2.1-Topo
symmetry Space Group: P 65
R_factor 0.174 R_Free 0.200
crystal
cell
length a length b length c angle alpha angle beta angle gamma
98.280 98.280 80.641 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.08 Å
ligand 596, GOL, SO4 BindingDB enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceRational evolution of a novel type of potent and selective proviral integration site in Moloney murine leukemia virus kinase 1 (PIM1) inhibitor from a screening-hit compound., Nakano H, Saito N, Parker L, Tada Y, Abe M, Tsuganezawa K, Yokoyama S, Tanaka A, Kojima H, Okabe T, Nagano T, J Med Chem. 2012 Jun 14;55(11):5151-64. Epub 2012 May 17. PMID:22540945
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (3umw.pdb1.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 3UMW
  • CSU: Contacts of Structural Units for 3UMW
  • Structure Factors (1311 Kb)
  • Retrieve 3UMW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3UMW from S2C, [Save to disk]
  • Re-refined 3umw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3UMW in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 3UMW
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3UMW, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3umw_A] [3umw]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3UMW: [S_TKc ] by SMART
    • Other resources with information on 3UMW
  • Community annotation for 3UMW at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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