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The Crystal Structure of PPARg from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6DHA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1M MIB pH9.0, 25% PEG 1500
Crystal Properties Matthews coefficient Solvent content 2.67 53.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.808 α = 90 b = 62.297 β = 101.73 c = 118.415 γ = 90
Symmetry Space Group C 1 2 1
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 2023-05-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.95374 CLSI 08ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.2 49.03 97.9 0.051 16.6 7 32713
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.27 0.751
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.2 49.03 32709 1613 97.665 0.219 0.2172 0.2191 0.2479 0.2553 68.427
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] 2.099 1.062 4.456 -6.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 12.404 r_dihedral_angle_3_deg 11.038 r_lrange_it 7.746 r_lrange_other 7.734 r_scangle_it 5.619 r_scangle_other 5.618 r_dihedral_angle_1_deg 5.142 r_mcangle_it 4.664 r_mcangle_other 4.664 r_dihedral_angle_2_deg 4.066
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 12.404 r_dihedral_angle_3_deg 11.038 r_lrange_it 7.746 r_lrange_other 7.734 r_scangle_it 5.619 r_scangle_other 5.618 r_dihedral_angle_1_deg 5.142 r_mcangle_it 4.664 r_mcangle_other 4.664 r_dihedral_angle_2_deg 4.066 r_scbond_it 3.295 r_scbond_other 3.294 r_mcbond_it 2.972 r_mcbond_other 2.97 r_angle_refined_deg 0.916 r_angle_other_deg 0.342 r_nbd_refined 0.209 r_symmetry_nbd_refined 0.189 r_symmetry_xyhbond_nbd_refined 0.185 r_nbtor_refined 0.175 r_symmetry_nbd_other 0.168 r_nbd_other 0.144 r_xyhbond_nbd_refined 0.133 r_symmetry_nbtor_other 0.069 r_chiral_restr 0.047 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4131 Nucleic Acid Atoms Solvent Atoms 101 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing