4Z1F

Crystal structure of human Trap1 with PU-H71


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.703 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.222 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Development of a Mitochondria-Targeted Hsp90 Inhibitor Based on the Crystal Structures of Human TRAP1

Lee, C.Park, H.K.Jeong, H.Lim, J.Lee, A.J.Cheon, K.Y.Kim, C.S.Thomas, A.P.Bae, B.Kim, N.D.Kim, S.H.Suh, P.G.Ryu, J.H.Kang, B.H.

(2015) J.Am.Chem.Soc. 137: 4358-4367

  • DOI: 10.1021/ja511893n
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The mitochondrial pool of Hsp90 and its mitochondrial paralogue, TRAP1, suppresses cell death and reprograms energy metabolism in cancer cells; therefore, Hsp90 and TRAP1 have been suggested as target proteins for anticancer drug development. Here, w ...

    The mitochondrial pool of Hsp90 and its mitochondrial paralogue, TRAP1, suppresses cell death and reprograms energy metabolism in cancer cells; therefore, Hsp90 and TRAP1 have been suggested as target proteins for anticancer drug development. Here, we report that the actual target protein in cancer cell mitochondria is TRAP1, and current Hsp90 inhibitors cannot effectively inactivate TRAP1 because of their insufficient accumulation in the mitochondria. To develop mitochondrial TRAP1 inhibitors, we determined the crystal structures of human TRAP1 complexed with Hsp90 inhibitors. The isopropyl amine of the Hsp90 inhibitor PU-H71 was replaced with the mitochondria-targeting moiety triphenylphosphonium to produce SMTIN-P01. SMTIN-P01 showed a different mode of action from the nontargeted PU-H71, as well as much improved cytotoxicity to cancer cells. In addition, we determined the structure of a TRAP1-adenylyl-imidodiphosphate (AMP-PNP) complex. On the basis of comparative analysis of TRAP1 structures, we propose a molecular mechanism of ATP hydrolysis that is crucial for chaperone function.


    Organizational Affiliation

    ‚ą•New Drug Development Center, Daegu-Gyeongbuk Medical Innovation Foundation, Daegu, 701-310, Korea.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Heat shock protein 75 kDa, mitochondrial
A
502Homo sapiensMutation(s): 0 
Gene Names: TRAP1 (HSP75)
Find proteins for Q12931 (Homo sapiens)
Go to Gene View: TRAP1
Go to UniProtKB:  Q12931
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
H71
Query on H71

Download SDF File 
Download CCD File 
A
8-[(6-IODO-1,3-BENZODIOXOL-5-YL)THIO]-9-[3-(ISOPROPYLAMINO)PROPYL]-9H-PURIN-6-AMINE
C18 H21 I N6 O2 S
SUPVGFZUWFMATN-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
H71IC50: 205 nM (100) BINDINGDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.703 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.222 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 69.223α = 90.00
b = 69.223β = 90.00
c = 252.522γ = 90.00
Software Package:
Software NamePurpose
PHENIXphasing
HKL-2000data processing
Cootmodel building
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-04-22
    Type: Initial release