☰ Navigation Tabs
Crystal structure of 5-HT2AR in complex with aripiprazole
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, 50 mM ammonium floride, 28%-30% PEG400,
300 mM NDSB-195 or 3% w/v trimethylamine N-oxide dihydrate
Crystal Properties Matthews coefficient Solvent content 2.92 57.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.27 α = 90 b = 54.28 β = 90 c = 179.55 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 2.9 48.41 98.9 0.258 0.26 0.03 0.998 13.4 53.6 11410
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 2.9 3.08 94.3 1.526 1.593 0.443 0.65 1.3 9.7
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 2.9 48.41 10783 589 98.8 0.2237 0.2227 0.2265 0.2437 0.2459 RANDOM 70.901
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] 1.51 5.22 -6.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.197 r_dihedral_angle_3_deg 16.039 r_dihedral_angle_4_deg 12.808 r_mcangle_it 10.664 r_mcbond_other 7.23 r_mcbond_it 7.229 r_dihedral_angle_1_deg 6.149 r_angle_refined_deg 1.685 r_angle_other_deg 1.365 r_chiral_restr 0.076
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.197 r_dihedral_angle_3_deg 16.039 r_dihedral_angle_4_deg 12.808 r_mcangle_it 10.664 r_mcbond_other 7.23 r_mcbond_it 7.229 r_dihedral_angle_1_deg 6.149 r_angle_refined_deg 1.685 r_angle_other_deg 1.365 r_chiral_restr 0.076 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2718 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 201
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing