2XDK Chaperone date May 04, 2010
title Structure Of Hsp90 With Small Molecule Inhibitor Bound
authors C.W.Murray, M.G.Carr, O.Callaghan, G.Chessari, M.Congreve, S.Cowa J.E.Coyle, R.Downham, E.Figueroa, M.Frederickson, B.Graham, R.Mc M.A.Obrien, S.Patel, T.R.Phillips, G.Williams, A.J.Woodhead, A.J.A.Woolford
compound source
Molecule: Heat Shock Protein Hsp 90-Alpha
Chain: A
Fragment: Residues 9-236
Synonym: Hsp90, Heat Shock 86 Kda, Hsp 86, Hsp86, Renal Car Antigen Ny-Ren-38;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: P 1 21 1
R_factor 0.1711 R_Free 0.2404
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.591 44.211 54.298 90.00 115.89 90.00
method X-Ray Diffractionresolution 1.97 Å
ligand XDK enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceFragment-based drug discovery applied to hsp90. Discovery of two lead series with high ligand efficiency., Murray CW, Carr MG, Callaghan O, Chessari G, Congreve M, Cowan S, Coyle JE, Downham R, Figueroa E, Frederickson M, Graham B, McMenamin R, O'Brien MA, Patel S, Phillips TR, Williams G, Woodhead AJ, Woolford AJ, J Med Chem. 2010 Aug 26;53(16):5942-55. PMID:20718493
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (45 Kb) [Save to disk]
  • Biological Unit Coordinates (2xdk.pdb1.gz) 40 Kb
  • LPC: Ligand-Protein Contacts for 2XDK
  • CSU: Contacts of Structural Units for 2XDK
  • Structure Factors (253 Kb)
  • Retrieve 2XDK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XDK from S2C, [Save to disk]
  • Re-refined 2xdk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XDK 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 2XDK
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2XDK, from MSDmotif at EBI
  • Fold representative 2xdk from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xdk_A] [2xdk]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 2XDK with the sequences similar proteins can be viewed for 2XDK's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2XDK
  • Community annotation for 2XDK at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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