5UIG

Crystal structure of adenosine A2A receptor bound to a novel triazole-carboximidamide antagonist


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.299 
  • R-Value Work: 0.276 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of the adenosine A2A receptor bound to an antagonist reveals a potential allosteric pocket.

Sun, B.Bachhawat, P.Chu, M.L.Wood, M.Ceska, T.Sands, Z.A.Mercier, J.Lebon, F.Kobilka, T.S.Kobilka, B.K.

(2017) Proc. Natl. Acad. Sci. U.S.A. 114: 2066-2071

  • DOI: 10.1073/pnas.1621423114

  • PubMed Abstract: 
  • The adenosine A <sub>2A </sub> receptor (A <sub>2A </sub>R) has long been implicated in cardiovascular disorders. As more selective A <sub>2A </sub>R ligands are being identified, its roles in other disorders, such as Parkinson's disease, are startin ...

    The adenosine A 2A receptor (A 2A R) has long been implicated in cardiovascular disorders. As more selective A 2A R ligands are being identified, its roles in other disorders, such as Parkinson's disease, are starting to emerge, and A 2A R antagonists are important drug candidates for nondopaminergic anti-Parkinson treatment. Here we report the crystal structure of A 2A receptor bound to compound 1 (Cmpd-1), a novel A 2A R/ N -methyl d-aspartate receptor subtype 2B (NR2B) dual antagonist and potential anti-Parkinson candidate compound, at 3.5 Å resolution. The A 2A receptor with a cytochrome b562-RIL (BRIL) fusion (A 2A R-BRIL) in the intracellular loop 3 (ICL3) was crystallized in detergent micelles using vapor-phase diffusion. Whereas A 2A R-BRIL bound to the antagonist ZM241385 has previously been crystallized in lipidic cubic phase (LCP), structural differences in the Cmpd-1-bound A 2A R-BRIL prevented formation of the lattice observed with the ZM241385-bound receptor. The crystals grew with a type II crystal lattice in contrast to the typical type I packing seen from membrane protein structures crystallized in LCP. Cmpd-1 binds in a position that overlaps with the native ligand adenosine, but its methoxyphenyl group extends to an exosite not previously observed in other A 2A R structures. Structural analysis revealed that Cmpd-1 binding results in the unique conformations of two tyrosine residues, Tyr9 1.35 and Tyr271 7.36 , which are critical for the formation of the exosite. The structure reveals insights into antagonist binding that are not observed in other A 2A R structures, highlighting flexibility in the binding pocket that may facilitate the development of A 2A R-selective compounds for the treatment of Parkinson's disease.


    Organizational Affiliation

    ConfometRx, Inc., Santa Clara, CA 95054; kobilka@stanford.edu.,Discovery Biology, New Medicines, UCB Pharma, B-1420 Braine-l'Alleud, Belgium.,Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA 94305.,Department of Structural Biology, New Medicines, UCB Pharma, Slough SL1 3WE, United Kingdom.,ConfometRx, Inc., Santa Clara, CA 95054.,Discovery Chemistry, New Medicines, UCB Pharma, B-1420 Braine-l'Alleud, Belgium.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Adenosine receptor A2a,Soluble cytochrome b562,Adenosine receptor A2a
A
444Escherichia coliHomo sapiens
This entity is chimeric
Mutation(s): 3 
Gene Names: cybC, ADORA2A (ADORA2)
Find proteins for P0ABE7 (Escherichia coli)
Go to UniProtKB:  P0ABE7
Find proteins for P29274 (Homo sapiens)
Go to Gene View: ADORA2A
Go to UniProtKB:  P29274
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDT
Query on EDT

Download SDF File 
Download CCD File 
A
{[-(BIS-CARBOXYMETHYL-AMINO)-ETHYL]-CARBOXYMETHYL-AMINO}-ACETIC ACID
C10 H16 N2 O8
KCXVZYZYPLLWCC-UHFFFAOYSA-N
 Ligand Interaction
8D1
Query on 8D1

Download SDF File 
Download CCD File 
A
5-amino-N-[(2-methoxyphenyl)methyl]-2-(3-methylphenyl)-2H-1,2,3-triazole-4-carboximidamide
C18 H20 N6 O
UJHUYWLZLDBDSR-UHFFFAOYSA-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: 3.5 Å
  • R-Value Free: 0.299 
  • R-Value Work: 0.276 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 131.222α = 90.00
b = 131.222β = 90.00
c = 89.714γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
PHASERphasing
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-02-08
    Type: Initial release
  • Version 1.1: 2017-02-22
    Type: Database references
  • Version 1.2: 2017-03-08
    Type: Database references