5H22

Hsp90 alpha N-terminal domain in complex with an inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.499 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Synthesis and in vitro antiproliferative activity of C5-benzyl substituted 2-amino-pyrrolo[2,3-d]pyrimidines as potent Hsp90 inhibitors.

Lee, J.H.Shin, S.C.Seo, S.H.Seo, Y.H.Jeong, N.Kim, C.W.Kim, E.E.Keum, G.

(2017) Bioorg. Med. Chem. Lett. 27: 237-241

  • DOI: 10.1016/j.bmcl.2016.11.062

  • PubMed Abstract: 
  • A novel series of heat shock protein 90 (Hsp90) inhibitors was identified by X-ray crystal analysis of complex structures at solvent-exposed exit pocket C. The 2-amino-pyrrolo[2,3-d]pyrimidine derivatives, 7-deazapurines substituted with a benzyl moi ...

    A novel series of heat shock protein 90 (Hsp90) inhibitors was identified by X-ray crystal analysis of complex structures at solvent-exposed exit pocket C. The 2-amino-pyrrolo[2,3-d]pyrimidine derivatives, 7-deazapurines substituted with a benzyl moiety at C5, showed potent Hsp90 inhibition and broad-spectrum antiproliferative activity against NCI-60 cancer cell lines. The most potent compound, 6a, inhibited Hsp90 with an IC 50 of 36nM and showed a submicromolar mean GI 50 value against NCI-60 cell lines. The interaction of 6a at the ATP-binding pocket of Hsp90 was confirmed by X-ray crystallography and Western blot analysis.


    Organizational Affiliation

    Department of Chemistry, Korea University, Anam-ro 145, Seongbuk-gu, Seoul 02841, Republic of Korea.,College of Pharmacy, Keimyung University, Daegu 42601, Republic of Korea.,Center for Neuro-Medicine, Korea Institute of Science and Technology (KIST), Hwarangro 14-gil 5, Seongbuk-gu, Seoul 02792, Republic of Korea. Electronic address: gkeum@kist.re.kr.,Biomedical Research Institute, KIST, Hwarangro 14-gil 5, Seongbuk-gu, Seoul 02792, Republic of Korea. Electronic address: eunice@kist.re.kr.,Center for Neuro-Medicine, Korea Institute of Science and Technology (KIST), Hwarangro 14-gil 5, Seongbuk-gu, Seoul 02792, Republic of Korea.,Center for Neuro-Medicine, Korea Institute of Science and Technology (KIST), Hwarangro 14-gil 5, Seongbuk-gu, Seoul 02792, Republic of Korea; Department of Chemistry, Korea University, Anam-ro 145, Seongbuk-gu, Seoul 02841, Republic of Korea.,School of Life Sciences and Biotechnology, Korea University, Seoul 02841, Republic of Korea.,Biomedical Research Institute, KIST, Hwarangro 14-gil 5, Seongbuk-gu, Seoul 02792, Republic of Korea; School of Life Sciences and Biotechnology, Korea University, Seoul 02841, Republic of Korea.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Hsp90aa1 protein
A
215Mus musculusMutation(s): 0 
Gene Names: Hsp90aa1 (Hsp86, Hsp86-1, Hspca)
Find proteins for P07901 (Mus musculus)
Go to UniProtKB:  P07901
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
7FT
Query on 7FT

Download SDF File 
Download CCD File 
A
4-chloranyl-7-[(4-methoxy-3,5-dimethyl-pyridin-2-yl)methyl]-5-(phenylmethyl)pyrrolo[2,3-d]pyrimidin-2-amine
C22 H22 Cl N5 O
CBDCNHPEKJZUHT-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.499 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.194 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 66.787α = 90.00
b = 90.581β = 90.00
c = 98.943γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
HKL-2000data scaling
HKL-2000data processing
PHENIXrefinement
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Korea, Republic OfNRF 20110021713

Revision History 

  • Version 1.0: 2017-10-11
    Type: Initial release
  • Version 1.1: 2019-04-24
    Type: Data collection, Database references