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Crystal structure of 5-HT2AR in complex with (R)-IHCH-7179
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6A93
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 8 293.15 100 mM Tris/HCl, 160 mM Potassium fluoride, 30% PEG400
Crystal Properties Matthews coefficient Solvent content 2.8 56.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.89 α = 90 b = 54.03 β = 90 c = 177.84 γ = 90
Symmetry Space Group P 21 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 PILATUS 6M 2022-07-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL45XU 1 SPring-8 BL45XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.7 48.89 96 0.068 0.997 7.9 25.8 13075
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.83 78 0.55 0.351 1.3 19.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.7 47.19 12403 632 96.04 0.2489 0.2477 0.2497 0.2698 0.2674 RANDOM 64.423
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] 2.28 3.06 -5.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.673 r_dihedral_angle_4_deg 18.109 r_dihedral_angle_3_deg 13.991 r_mcangle_it 9.347 r_mcbond_it 6.454 r_mcbond_other 6.452 r_dihedral_angle_1_deg 6.27 r_angle_refined_deg 1.743 r_angle_other_deg 1.533 r_chiral_restr 0.084
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.673 r_dihedral_angle_4_deg 18.109 r_dihedral_angle_3_deg 13.991 r_mcangle_it 9.347 r_mcbond_it 6.454 r_mcbond_other 6.452 r_dihedral_angle_1_deg 6.27 r_angle_refined_deg 1.743 r_angle_other_deg 1.533 r_chiral_restr 0.084 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2720 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 210
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing