1ISS

Crystal Structure of Metabotropic Glutamate Receptor Subtype 1 Complexed with an antagonist


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.314 
  • R-Value Work: 0.257 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural views of the ligand-binding cores of a metabotropic glutamate receptor complexed with an antagonist and both glutamate and Gd3+.

Tsuchiya, D.Kunishima, N.Kamiya, N.Jingami, H.Morikawa, K.

(2002) Proc Natl Acad Sci U S A 99: 2660-2665

  • DOI: 10.1073/pnas.052708599
  • Primary Citation of Related Structures:  
    1ISR, 1ISS

  • PubMed Abstract: 
  • Crystal structures of the extracellular ligand-binding region of the metabotropic glutamate receptor, complexed with an antagonist, (S)-(alpha)-methyl-4-carboxyphenylglycine, and with both glutamate and Gd3+ ion, have been determined by x-ray crystallogr ...

    Crystal structures of the extracellular ligand-binding region of the metabotropic glutamate receptor, complexed with an antagonist, (S)-(alpha)-methyl-4-carboxyphenylglycine, and with both glutamate and Gd3+ ion, have been determined by x-ray crystallographic analyses. The structure of the complex with the antagonist is similar to that of the unliganded resting dimer. The antagonist wedges the protomer to maintain an inactive open form. The glutamate/Gd3+ complex is an exact 2-fold symmetric dimer, where each bi-lobed protomer adopts the closed conformation. The surface of the C-terminal domain contains an acidic patch, whose negative charges are alleviated by the metal cation to stabilize the active dimeric structure. The structural comparison between the active and resting dimers suggests that glutamate binding tends to induce domain closing and a small shift of a helix in the dimer interface. Furthermore, an interprotomer contact including the acidic patch inhibited dimer formation by the two open protomers in the active state. These findings provide a structural basis to describe the link between ligand binding and the dimer interface.


    Related Citations: 
    • Structural Basis of Glutamate Recognition by a Dimeric Metabotropic Glutamate Receptor
      Kunishima, N., Shimada, Y., Tsuji, Y., Sato, T., Yamamoto, M., Kumasaka, T., Nakanishi, S., Jingami, H., Morikawa, K.
      (2000) Nature 407: 971

    Organizational Affiliation

    Department of Structural Biology, Biomolecular Engineering Research Institute, 6-2-3 Furuedai, Suita, Osaka 565-0874, Japan.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Metabotropic Glutamate Receptor subtype 1 AB490Rattus norvegicusMutation(s): 0 
Gene Names: Grm1Gprc1aMglur1
Find proteins for P23385 (Rattus norvegicus)
Explore P23385 
Go to UniProtKB:  P23385
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MCG
Query on MCG

Download Ideal Coordinates CCD File 
A, B
(S)-(ALPHA)-METHYL-4-CARBOXYPHENYLGLYCINE
C10 H11 N O4
DNCAZYRLRMTVSF-JTQLQIEISA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
MCGKi:  10000   nM  BindingDB
MCGKi:  50000   nM  BindingDB
MCGKi:  10000   nM  BindingDB
MCGIC50:  4300   nM  BindingDB
MCGIC50:  155000   nM  BindingDB
MCGKi:  165   nM  BindingDB
MCGIC50:  700000   nM  BindingDB
MCGKi:  540000   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.314 
  • R-Value Work: 0.257 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 112.142α = 90
b = 112.142β = 90
c = 289.905γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
AMoREphasing
CNSrefinement
CCP4data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-03-13
    Type: Initial release
  • Version 1.1: 2008-04-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance