Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 26.44 kDa 
• Atom Count: 1821 
• Modelled Residue Count: 214 
• Deposited Residue Count: 232 
• Unique protein chains: 1

4EGK

Human Hsp90-alpha ATPase domain bound to Radicicol

• DOI: 10.2210/pdb4EGK/pdb

• Classification: Hydrolase/Hydrolase inhibitor
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-03-31 Released: 2012-05-23 
• Deposition Author(s): Chen, W.J., Wood, S.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free: 0.243 
• R-Value Work: 0.201 
• R-Value Observed: 0.203 

Literature

Fragment screening using capillary electrophoresis (CEfrag) for hit identification of heat shock protein 90 ATPase inhibitors.

Austin, C., Pettit, S.N., Magnolo, S.K., Sanvoisin, J., Chen, W., Wood, S.P., Freeman, L.D., Pengelly, R.J., Hughes, D.E.

(2012) J Biomol Screen 17: 868-876

• PubMed: 22573733 
• DOI: 10.1177/1087057112445785
• Primary Citation of Related Structures:  
  4EGH, 4EGI, 4EGK


• PubMed Abstract: 
  

CEfrag is a new fragment screening technology based on affinity capillary electrophoresis (ACE). Here we report on the development of a mobility shift competition assay using full-length human heat shock protein 90α (Hsp90α), radicicol as the competitor probe ligand, and successful screening of the Selcia fragment library. The CEfrag assay was able to detect weaker affinity (IC(50) >500 µM) fragments than were detected by a fluorescence polarization competition assay using FITC-labeled geldanamycin. The binding site of selected fragments was determined by co-crystallization with recombinant Hsp90α N-terminal domain and X-ray analysis. The results of this study confirm that CEfrag is a sensitive microscale technique enabling detection of fragments binding to the biological target in near-physiological solution.

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Organizational Affiliation: 

Discovery, Selcia Ltd, Fyfield Business and Research Park, Ongar, UK. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Heat shock protein HSP 90-alpha	A	232	Homo sapiens	Mutation(s): 0  Gene Names: HSP90AA1, HSP90A, HSPC1, HSPCA
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
RDC (Subject of Investigation/LOI)	B [auth A]	RADICICOL C18 H17 Cl O6 WYZWZEOGROVVHK-GTMNPGAYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
RDC	BindingDB:  4EGK	Kd: min: 1.2, max: 46.3 (nM) from 4 assay(s)
		IC50: min: 19, max: 200 (nM) from 3 assay(s)
	PDBBind:  4EGK	Kd: 19 (nM) from 1 assay(s)
	Binding MOAD:  4EGK	Kd: 19 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free: 0.243 
• R-Value Work: 0.201 
• R-Value Observed: 0.203 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.44	α = 90
b = 43.88	β = 113.81
c = 53.64	γ = 90

Software Package:

Software Name	Purpose
PROTEUM2	data collection
PHASER	phasing
REFMAC	refinement
PROTEUM2	data reduction
PROTEUM2	data scaling

Structure Validation

Ligand Structure Quality Assessment  

Entry History 

Deposition Data

• Deposited Date: 2012-03-31 
• Released Date: 2012-05-23 
Deposition Author(s): Chen, W.J., Wood, S.P.

Revision History  

• Version 1.0: 2012-05-23
  Type: Initial release
  
• Version 1.1: 2012-10-17
  Changes: Database references