2YDV

Thermostabilised HUMAN A2a Receptor with NECA bound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.233

Literature

Macromolecules
Sequence Display for 2YDV

Classification: RECEPTOR

Total Structure Weight: 37873.23

Macromolecule Entities
Molecule Chains Length Organism Details
ADENOSINE RECEPTOR A2A A 325 Homo sapiens Fragment: RESIDUES 1-317
Mutation: L48A, A54L, T65A, Q89A, N154A
Gene Name(s): ADORA2A Gene View ADORA2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: G Protein-Coupled Receptors (GPCRs)

Protein Name: A2A adenosine receptor


Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SOG
Query on SOG

A 2-HYDROXYMETHYL-6-OCTYLSULFANYL-TETRAHYDRO- PYRAN-3,4,5-TRIOL
1-S-OCTYL-BETA-D-THIOGLUCOSIDE (Synonym)
C14 H28 O5 S
CGVLVOOFCGWBCS-RGDJUOJXSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NEC
Query on NEC

A N-ETHYL-5'-CARBOXAMIDO ADENOSINE
C12 H16 N6 O4
JADDQZYHOWSFJD-FLNNQWSLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
NEC EC50: 13 - 394 nM (88 - 97) BindingDB
IC50: 7.05 - 366 nM (88 - 97) BindingDB
Ki: 1 - >10000 nM (88 - 97) BindingDB

N/A in BindingMoad
Ki: 13.8 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.233
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 76.94 α = 90.00
b = 99.55 β = 93.31
c = 79.65 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-03-24
  • Released Date: 2011-05-18
  • Deposition author(s): Lebon, G., Warne, T., Edwards, P.C., Bennett, K., Langmead, C.J., Leslie, A.G.W., Tate, C.G.

Revision History

  • 2011-06-16
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance