2CCS

HUMAN HSP90 WITH 4-CHLORO-6-(4-PIPERAZIN-1-YL-1H-PYRAZOL-3-YL)- BENZENE-1,2-DIOL

• PDB DOI: https://doi.org/10.2210/pdb2CCS/pdb

• Classification: CHAPERONE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2006-01-18 Released: 2006-02-22 
• Deposition Author(s): Barril, X., Beswick, M.C., Collier, A., Drysdale, M.J., Dymock, B.W., Fink, A., Grant, K., Howes, R., Jordan, A.M., Massey, A., Surgenor, A., Wayne, J., Workman, P., Wright, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 0.277 
• R-Value Work: 0.227 
• R-Value Observed: 0.229 

Literature

4-Amino derivatives of the Hsp90 inhibitor CCT018159.

Barril, X., Beswick, M.C., Collier, A., Drysdale, M.J., Dymock, B.W., Fink, A., Grant, K., Howes, R., Jordan, A.M., Massey, A., Surgenor, A., Wayne, J., Workman, P., Wright, L.

(2006) Bioorg Med Chem Lett 16: 2543-2548

• PubMed: 16480864 
• DOI: https://doi.org/10.1016/j.bmcl.2006.01.099
• Primary Citation of Related Structures:  
  2CCS, 2CCT, 2CCU


• PubMed Abstract: 
  

  Novel piperazinyl, morpholino and piperidyl derivatives of the pyrazole-based Hsp90 inhibitor CCT018159 are described. Structure-activity relationships have been elucidated by X-ray co-crystal analysis of the new compounds bound to the N-terminal domain of human Hsp90. Key features of the binding mode are essentially identical to the recently reported potent analogue VER-49009. The most potent of the new compounds has a methylsulfonylbenzyl substituent appended to the piperazine nitrogen, possesses an IC50 of less than 600 nM binding against the enzyme and demonstrates low micromolar inhibition of tumour cell proliferation.

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Organizational Affiliation: 

Vernalis Ltd, Granta Park, Cambridge CB1 6GB, UK.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 26.91 kDa 
• Atom Count: 1,952 
• Modelled Residue Count: 209 
• Deposited Residue Count: 236 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HEAT SHOCK PROTEIN HSP-90 ALPHA	A	236	Homo sapiens	Mutation(s): 0  EC: 3.6.4.10
UniProt & NIH Common Fund Data Resources
Find proteins for P07900 (Homo sapiens) Explore P07900  Go to UniProtKB:  P07900
PHAROS:  P07900 GTEx:  ENSG00000080824

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
4BH	B [auth A]	4-CHLORO-6-(4-PIPERAZIN-1-YL-1H-PYRAZOL-5-YL)BENZENE-1,3-DIOL C13 H15 Cl N4 O2 RFPHEBUOQYYPDO-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
4BH	PDBBind:  2CCS	IC50: 2000 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 0.277 
• R-Value Work: 0.227 
• R-Value Observed: 0.229 
• Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.978	α = 90
b = 88.406	β = 90
c = 99.974	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
d*TREK	data reduction
d*TREK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-02-22 
Deposition Author(s): Barril, X., Beswick, M.C., Collier, A., Drysdale, M.J., Dymock, B.W., Fink, A., Grant, K., Howes, R., Jordan, A.M., Massey, A., Surgenor, A., Wayne, J., Workman, P., Wright, L.

Revision History  

• Version 1.0: 2006-02-22
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-07-05
  Changes: Data collection
• Version 1.4: 2018-03-28
  Changes: Database references, Source and taxonomy
• Version 1.5: 2024-05-08
  Changes: Advisory, Data collection, Database references