4C7A

Crystal structure of the Smoothened CRD, selenomethionine-labeled


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.236 
  • R-Value Observed: 0.238 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure and Function of the Smoothened Extracellular Domain in Vertebrate Hedgehog Signaling

Nachtergaele, S.Whalen, D.M.Mydock, L.K.Zhao, Z.Malinauskas, T.Krishnan, K.Ingham, P.W.Covey, D.F.Siebold, C.Rohatgi, R.

(2013) Elife 2: 01340

  • DOI: https://doi.org/10.7554/eLife.01340
  • Primary Citation of Related Structures:  
    4C79, 4C7A

  • PubMed Abstract: 

    The Hedgehog (Hh) signal is transduced across the membrane by the heptahelical protein Smoothened (Smo), a developmental regulator, oncoprotein and drug target in oncology. We present the 2.3 Å crystal structure of the extracellular cysteine rich domain (CRD) of vertebrate Smo and show that it binds to oxysterols, endogenous lipids that activate Hh signaling. The oxysterol-binding groove in the Smo CRD is analogous to that used by Frizzled 8 to bind to the palmitoleyl group of Wnt ligands and to similar pockets used by other Frizzled-like CRDs to bind hydrophobic ligands. The CRD is required for signaling in response to native Hh ligands, showing that it is an important regulatory module for Smo activation. Indeed, targeting of the Smo CRD by oxysterol-inspired small molecules can block signaling by all known classes of Hh activators and by clinically relevant Smo mutants. DOI:http://dx.doi.org/10.7554/eLife.01340.001.


  • Organizational Affiliation

    Department of Biochemistry , Stanford University School of Medicine , Stanford , United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
SMOOTHENED
A, B
193Danio rerioMutation(s): 0 
UniProt
Find proteins for Q5RH73 (Danio rerio)
Explore Q5RH73 
Go to UniProtKB:  Q5RH73
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5RH73
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.236 
  • R-Value Observed: 0.238 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 68.13α = 90
b = 68.13β = 90
c = 92.27γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-11-06
    Type: Initial release
  • Version 1.1: 2013-11-13
    Changes: Database references
  • Version 1.2: 2024-10-16
    Changes: Data collection, Database references, Derived calculations, Other, Structure summary