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Crystal structure of 5-HT2AR in complex with cariprazine
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 293.15 100 mM Tris/HCl, 100 mM Potassium formate, 30% PEG
Crystal Properties Matthews coefficient Solvent content 2.97 58.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.27 α = 90 b = 55.04 β = 90 c = 180.29 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 2020-07-06 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) 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 3.3 48.42 97.8 0.273 0.283 0.072 0.999 8.1 14.2 7889
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 3.3 3.56 89.6 1.25 1.35 0.472 0.396 1.5 6.8
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 6A93 3.3 48.42 7475 381 97.69 0.2187 0.2176 0.2212 0.239 0.2405 RANDOM 77.625
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] 1.67 4.89 -6.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.864 r_dihedral_angle_4_deg 16.304 r_dihedral_angle_3_deg 16.057 r_mcangle_it 12.365 r_mcbond_it 8.303 r_mcbond_other 8.302 r_dihedral_angle_1_deg 7.444 r_angle_refined_deg 1.877 r_angle_other_deg 1.754 r_chiral_restr 0.086
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.864 r_dihedral_angle_4_deg 16.304 r_dihedral_angle_3_deg 16.057 r_mcangle_it 12.365 r_mcbond_it 8.303 r_mcbond_other 8.302 r_dihedral_angle_1_deg 7.444 r_angle_refined_deg 1.877 r_angle_other_deg 1.754 r_chiral_restr 0.086 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2711 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 155
Software Software Software Name Purpose PHENIX refinement XSCALE data scaling XDS data reduction PHASER phasing