3B28 Chaperone Chaperone Inhibitor date Jul 21, 2011
title Hsp90 Alpha N-Terminal Domain In Complex With An Inhibitor C
authors T.A.Fukami, N.Ono
compound source
Molecule: Heat Shock Protein Hsp 90-Alpha
Chain: A, B
Fragment: N-Terminal Domain
Synonym: Heat Shock 86 Kda, Hsp 86, Hsp86, Renal Carcinoma Ny-Ren-38;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hsp90aa1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Cp
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pt7-7
symmetry Space Group: C 1 2 1
R_factor 0.163 R_Free 0.181
length a length b length c angle alpha angle beta angle gamma
106.980 98.810 64.180 90.00 124.43 90.00
method X-Ray Diffractionresolution 1.35 Å
ligand B2X, GOL, MG BindingDB enzyme
A, B

Primary referenceLead generation of heat shock protein 90 inhibitors by a combination of fragment-based approach, virtual screening, and structure-based drug design., Miura T, Fukami TA, Hasegawa K, Ono N, Suda A, Shindo H, Yoon DO, Kim SJ, Na YJ, Aoki Y, Shimma N, Tsukuda T, Shiratori Y, Bioorg Med Chem Lett. 2011 Oct 1;21(19):5778-83. Epub 2011 Aug 6. PMID:21875802
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (92 Kb) [Save to disk]
  • Biological Unit Coordinates (3b28.pdb1.gz) 45 Kb
  • Biological Unit Coordinates (3b28.pdb2.gz) 44 Kb
  • Biological Unit Coordinates (3b28.pdb3.gz) 87 Kb
  • Biological Unit Coordinates (3b28.pdb4.gz) 86 Kb
  • LPC: Ligand-Protein Contacts for 3B28
  • CSU: Contacts of Structural Units for 3B28
  • Structure Factors (1838 Kb)
  • Retrieve 3B28 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3B28 from S2C, [Save to disk]
  • Re-refined 3b28 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3B28 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 3B28
  • 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 3B28, from MSDmotif at EBI
  • Fold representative 3b28 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3b28] [3b28_B] [3b28_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3B28: [HATPase_c ] by SMART
  • Other resources with information on 3B28
  • Community annotation for 3B28 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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