5UCI

Hsp90b N-terminal domain with inhibitors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.181 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure-guided design of an Hsp90 beta N-terminal isoform-selective inhibitor.

Khandelwal, A.Kent, C.N.Balch, M.Peng, S.Mishra, S.J.Deng, J.Day, V.W.Liu, W.Subramanian, C.Cohen, M.Holzbeierlein, J.M.Matts, R.Blagg, B.S.J.

(2018) Nat Commun 9: 425-425

  • DOI: 10.1038/s41467-017-02013-1
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The 90 kDa heat shock protein (Hsp90) is a molecular chaperone responsible for folding proteins that are directly associated with cancer progression. Consequently, inhibition of the Hsp90 protein folding machinery results in a combinatorial attack on ...

    The 90 kDa heat shock protein (Hsp90) is a molecular chaperone responsible for folding proteins that are directly associated with cancer progression. Consequently, inhibition of the Hsp90 protein folding machinery results in a combinatorial attack on numerous oncogenic pathways. Seventeen small-molecule inhibitors of Hsp90 have entered clinical trials, all of which bind the Hsp90 N-terminus and exhibit pan-inhibitory activity against all four Hsp90 isoforms. pan-Inhibition of Hsp90 appears to be detrimental as toxicities have been reported alongside induction of the pro-survival heat shock response. The development of Hsp90 isoform-selective inhibitors represents an alternative approach towards the treatment of cancer that may limit some of the detriments. Described herein is a structure-based approach to design isoform-selective inhibitors of Hsp90β, which induces the degradation of select Hsp90 clients without concomitant induction of Hsp90 levels. Together, these initial studies support the development of Hsp90β-selective inhibitors as a method to overcome the detriments associated with pan-inhibition.


    Organizational Affiliation

    Department of Urologic Oncology, University of Kansas Medical Center, 3901 Rainbow Boulevard, Kansas City, KS, 66160, USA.,Department of Chemistry and Biochemistry, The University of Notre Dame, 305 McCourtney Hall, Notre Dame, IN, 46556, USA. bblagg@nd.edu.,Department of Medicinal Chemistry, The University of Kansas, 1251 Wescoe Hall Drive, Malott Hall 4048, Lawrence, KS, 66045, USA.,Department of Chemistry and Biochemistry, The University of Notre Dame, 305 McCourtney Hall, Notre Dame, IN, 46556, USA.,Department of Biochemistry and Molecular Biology, 246C Noble Research Center, Oklahoma State University, Stillwater, OK, 74078, USA.,Department of Chemistry, The University of Kansas, 1251 Wescoe Hall Drive, Malott Hall 2010, Lawrence, KS, 66045, USA.,Department of Pharmacology, University of Michigan School of Medicine, 1150 W. Medical Center Dr., Ann Arbor, MI, 48109, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Heat shock protein HSP 90-beta
A, B, C, D
220Homo sapiensMutation(s): 0 
Gene Names: HSP90AB1 (HSP90B, HSPC2, HSPCB)
Find proteins for P08238 (Homo sapiens)
Go to Gene View: HSP90AB1
Go to UniProtKB:  P08238
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
874
Query on 874

Download SDF File 
Download CCD File 
A, B, C, D
(2,4-Dihydroxy-3-(hydroxymethyl)-5-isopropylphenyl)(isoindolin-2-yl)methanone
(1,3-dihydro-2H-isoindol-2-yl)[2,4-dihydroxy-3-(hydroxymethyl)-5-(propan-2-yl)phenyl]methanone
C19 H21 N O4
IODZYBOPABZETN-UHFFFAOYSA-N
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
B, D
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
DMS
Query on DMS

Download SDF File 
Download CCD File 
A, B, C, D
DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.181 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 129.273α = 90.00
b = 129.273β = 90.00
c = 107.327γ = 120.00
Software Package:
Software NamePurpose
HKL-3000data reduction
HKL-3000phasing
PHENIXrefinement
HKL-3000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-01-03
    Type: Initial release
  • Version 1.1: 2018-03-07
    Type: Database references