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PPARg in complex with inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other internal modle
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 20mM Tris pH 8.0, 5mM DTT, 100mM NaCl , 2mM EDTA
Crystal Properties Matthews coefficient Solvent content 2.5 50.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.368 α = 90 b = 60.664 β = 102.934 c = 118.254 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 CCD ADSC QUANTUM 1 2012-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.9762 ESRF ID29
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 2.15 50 99.2 0.05 16.2 3.4 34961
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 2.15 2.23 0.67
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE internal modle 2.2 45.982 32707 1626 99.091 0.201 0.1985 0.2038 0.2494 0.2532 59.746
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] 0.124 -0.092 -0.217 0.122
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.125 r_dihedral_angle_4_deg 23.046 r_dihedral_angle_3_deg 17.812 r_lrange_it 12.277 r_lrange_other 12.246 r_scangle_it 10.053 r_scangle_other 9.997 r_mcangle_it 7.393 r_mcangle_other 7.392 r_scbond_it 6.997
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.125 r_dihedral_angle_4_deg 23.046 r_dihedral_angle_3_deg 17.812 r_lrange_it 12.277 r_lrange_other 12.246 r_scangle_it 10.053 r_scangle_other 9.997 r_mcangle_it 7.393 r_mcangle_other 7.392 r_scbond_it 6.997 r_scbond_other 6.944 r_dihedral_angle_1_deg 6.426 r_mcbond_it 5.484 r_mcbond_other 5.48 r_angle_refined_deg 1.679 r_angle_other_deg 1.338 r_symmetry_nbd_refined 0.227 r_nbd_refined 0.221 r_symmetry_nbd_other 0.18 r_nbtor_refined 0.176 r_nbd_other 0.174 r_xyhbond_nbd_refined 0.166 r_symmetry_xyhbond_nbd_refined 0.163 r_symmetry_nbtor_other 0.083 r_chiral_restr 0.08 r_symmetry_xyhbond_nbd_other 0.041 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4170 Nucleic Acid Atoms Solvent Atoms 78 Heterogen Atoms 70
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing