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Crystal structure of human adenosine A2A receptor in complex with an insurmountable inverse agonist, KW-6356.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4EYI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 5 293.15 PEG 400, sodium thiocyanate, 2,5-hexanediol, sodium citrate
Crystal Properties Matthews coefficient Solvent content 2.6 52.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.35 α = 90 b = 180.51 β = 90 c = 141.24 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER X 9M 2016-06-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL32XU 1.0 SPring-8 BL32XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.3 47.08 99.5 0.17 0.184 0.066 0.99 6.9 7.1 22863
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38 97.4 1.14 1.284 0.567 0.402 4.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4EYI 2.3 45.17 21714 1119 99.36 0.1927 0.1904 0.198 0.2346 0.2326 RANDOM 50.332
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 1.1 -1.74 0.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.523 r_dihedral_angle_4_deg 19.279 r_dihedral_angle_3_deg 17.935 r_dihedral_angle_1_deg 6.177 r_angle_refined_deg 1.759 r_angle_other_deg 1.299 r_chiral_restr 0.089 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 r_bond_other_d 0.008
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.523 r_dihedral_angle_4_deg 19.279 r_dihedral_angle_3_deg 17.935 r_dihedral_angle_1_deg 6.177 r_angle_refined_deg 1.759 r_angle_other_deg 1.299 r_chiral_restr 0.089 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 r_bond_other_d 0.008 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3010 Nucleic Acid Atoms Solvent Atoms 63 Heterogen Atoms 496
Software Software Software Name Purpose XDS data reduction Aimless data scaling REFMAC refinement MOLREP phasing