5CGC

Structure of the human class C GPCR metabotropic glutamate receptor 5 transmembrane domain in complex with the negative allosteric modulator 3-chloro-4-fluoro-5-[6-(1H-pyrazol-1-yl)pyrimidin-4-yl]benzonitrile


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.101 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.234 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Fragment and Structure-Based Drug Discovery for a Class C GPCR: Discovery of the mGlu5 Negative Allosteric Modulator HTL14242 (3-Chloro-5-[6-(5-fluoropyridin-2-yl)pyrimidin-4-yl]benzonitrile).

Christopher, J.A.Aves, S.J.Bennett, K.A.Dore, A.S.Errey, J.C.Jazayeri, A.Marshall, F.H.Okrasa, K.Serrano-Vega, M.J.Tehan, B.G.Wiggin, G.R.Congreve, M.

(2015) J.Med.Chem. 58: 6653-6664

  • DOI: 10.1021/acs.jmedchem.5b00892
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Fragment screening of a thermostabilized mGlu5 receptor using a high-concentration radioligand binding assay enabled the identification of moderate affinity, high ligand efficiency (LE) pyrimidine hit 5. Subsequent optimization using structure-based ...

    Fragment screening of a thermostabilized mGlu5 receptor using a high-concentration radioligand binding assay enabled the identification of moderate affinity, high ligand efficiency (LE) pyrimidine hit 5. Subsequent optimization using structure-based drug discovery methods led to the selection of 25, HTL14242, as an advanced lead compound for further development. Structures of the stabilized mGlu5 receptor complexed with 25 and another molecule in the series, 14, were determined at resolutions of 2.6 and 3.1 Å, respectively.


    Related Citations: 
    • Structure of class C GPCR metabotropic glutamate receptor 5 transmembrane domain.
      Dore, A.S.,Okrasa, K.,Patel, J.C.,Serrano-Vega, M.,Bennett, K.,Cooke, R.M.,Errey, J.C.,Jazayeri, A.,Khan, S.,Tehan, B.,Weir, M.,Wiggin, G.R.,Marshall, F.H.
      (2014) Nature 511: 557


    Organizational Affiliation

    Heptares Therapeutics Ltd. , BioPark, Welwyn Garden City, Hertfordshire AL7 3AX, U.K.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Metabotropic glutamate receptor 5,Endolysin,Metabotropic glutamate receptor 5
A
444Enterobacteria phage T4Homo sapiens
This entity is chimeric
Mutation(s): 10 
Gene Names: E, GRM5 (GPRC1E, MGLUR5)
EC: 3.2.1.17
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
G Protein-Coupled Receptors (GPCRs)
Protein: 
Class C GPCR Metabotropic Glutamate Receptor 5 (mGlu5) with bound negative allosteric modulator
Find proteins for P00720 (Enterobacteria phage T4)
Go to UniProtKB:  P00720
Find proteins for P41594 (Homo sapiens)
Go to Gene View: GRM5
Go to UniProtKB:  P41594
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
51D
Query on 51D

Download SDF File 
Download CCD File 
A
3-chloro-4-fluoro-5-[6-(1H-pyrazol-1-yl)pyrimidin-4-yl]benzonitrile
C14 H7 Cl F N5
UPDNOLJVPHHECL-UHFFFAOYSA-N
 Ligand Interaction
OLA
Query on OLA

Download SDF File 
Download CCD File 
A
OLEIC ACID
C18 H34 O2
ZQPPMHVWECSIRJ-KTKRTIGZSA-N
 Ligand Interaction
MES
Query on MES

Download SDF File 
Download CCD File 
A
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.101 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.234 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 143.021α = 90.00
b = 43.818β = 99.20
c = 81.617γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata scaling
PHENIXrefinement
PHASERphasing
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-08-12
    Type: Initial release
  • Version 1.1: 2015-09-09
    Type: Database references
  • Version 1.2: 2015-12-16
    Type: Database references, Derived calculations, Other