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Crystal structure of HTR2A with inverse agonist
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5TVN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 7 293.15 100 mM Tris (pH7.0)
380 mM potassium phosphate-monobasic
33% PEG 400
100 mM Guanidine HCL
300 mM NDSB-195
Crystal Properties Matthews coefficient Solvent content 3.79 67.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.38 α = 90 b = 177.31 β = 90 c = 280.59 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 80 PIXEL DECTRIS EIGER X 16M 2019-03-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.03317 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 34.78 99.2 0.994 4.2 5.2 41269 65.18
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.12 0.306
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5TVN 3.4 33.5 1.37 26096 1336 90.84 0.2604 0.2581 0.26 0.3037 0.3063 48.64
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.4116 f_angle_d 1.5015 f_chiral_restr 0.0714 f_bond_d 0.0117 f_plane_restr 0.0091
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7863 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 245
Software Software Software Name Purpose PHENIX refinement Coot model building XDS data reduction Aimless data scaling PHENIX phasing