3DB8 Transferase date May 30, 2008
title Crystal Structure Of An Activated (Thr->Asp) Polo-Like Kinas Catalytic Domain In Complex With Compound 041
authors R.A.Elling, E.J.Hanan, W.Lew, M.J.Romanowski
compound source
Molecule: Polo-Like Kinase 1
Chain: A
Fragment: Plk1 Kinase Domain
Ec: 2.7.11.21
Engineered: Yes
Mutation: Yes
Organism_scientific: Danio Rerio
Organism_common: Zebra Fish
Organism_taxid: 7955
Gene: Plk1
Expression_system: Escherichia Coli
Expression_system_strain: Bl21(De3) Star Codon+
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex6p-1
symmetry Space Group: I 2 3
R_factor 0.226 R_Free 0.274
crystal
cell
length a length b length c angle alpha angle beta angle gamma
135.118 135.118 135.118 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.15 Å
ligand 1FR enzyme Transferase E.C.2.7.11.21 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDesign and synthesis of 2-amino-isoxazolopyridines as Polo-like kinase inhibitors., Hanan EJ, Fucini RV, Romanowski MJ, Elling RA, Lew W, Purkey HE, VanderPorten EC, Yang W, Bioorg Med Chem Lett. 2008 Oct 1;18(19):5186-9. Epub 2008 Aug 29. PMID:18790636
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (3db8.pdb1.gz) 43 Kb
  • LPC: Ligand-Protein Contacts for 3DB8
  • CSU: Contacts of Structural Units for 3DB8
  • Likely Quarternary Molecular Structure file(s) for 3DB8
  • Structure Factors (59 Kb)
  • Retrieve 3DB8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DB8 from S2C, [Save to disk]
  • Re-refined 3db8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DB8 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 3DB8
  • 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 3DB8, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3db8] [3db8_A]
  • SWISS-PROT database: [Q4KMI8]
  • Domain organization of [Q4KMI8_DANRE] by SWISSPFAM
  • Domain found in 3DB8: [S_TKc ] by SMART
  • Other resources with information on 3DB8
  • Community annotation for 3DB8 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science