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Human PPARgamma in complex with MINCH bound to the AF-2 sub-pocket
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2ATH 2ATH, 3B1M, 6DHA experimental model PDB 3B1M 2ATH, 3B1M, 6DHA experimental model PDB 6DHA 2ATH, 3B1M, 6DHA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 292.15 0.1 M Tris-HCl pH 8.5
30% PEG 2000
0.2 M Lithium sulfate
0.01 M guanidine hydrochloride
Crystal Properties Matthews coefficient Solvent content 2.26 45.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.181 α = 90 b = 92.181 β = 90 c = 89.509 γ = 120
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 PILATUS3 6M 2021-01-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.9184 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.6 89.51 99.7 0.18 0.191 0.998 8.8 9.8 26138
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.65 99.2 7.145 2.607 0.357 0.4 8.3
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 2ATH, 3B1M, 6DHA 2.6 79.83 204.38 24634 1745 94.07 0.2975 0.266 0.2585 0.2946 0.2817 86.95
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 13.1056 f_angle_d 0.777 f_chiral_restr 0.0379 f_bond_d 0.0054 f_plane_restr 0.0038
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6084 Nucleic Acid Atoms Solvent Atoms 12 Heterogen Atoms 20
Software Software Software Name Purpose PHENIX refinement PHENIX refinement DIALS data reduction Coot model building PHASER phasing