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Human Cyclophilin D Complexed with an Inhibitor at room temperature
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.3 291 30% PEG4000
Crystal Properties Matthews coefficient Solvent content 2.11 41.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.943 α = 90 b = 57.943 β = 90 c = 88.57 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 CCD ADSC QUANTUM 315r 2015-05-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.9797 ESRF BM30A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.45 57.94 99.2 7 2 25914
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.45 48.49 25914 1335 99.18 0.1349 0.1338 0.1554 0.1824 RANDOM 12.549
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] 0.14 0.14 -0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.051 r_sphericity_free 20.119 r_dihedral_angle_4_deg 13.913 r_dihedral_angle_3_deg 10.917 r_dihedral_angle_1_deg 5.836 r_rigid_bond_restr 5.65 r_sphericity_bonded 3.302 r_angle_other_deg 1.305 r_angle_refined_deg 1.303 r_mcangle_it 0.891
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.051 r_sphericity_free 20.119 r_dihedral_angle_4_deg 13.913 r_dihedral_angle_3_deg 10.917 r_dihedral_angle_1_deg 5.836 r_rigid_bond_restr 5.65 r_sphericity_bonded 3.302 r_angle_other_deg 1.305 r_angle_refined_deg 1.303 r_mcangle_it 0.891 r_mcbond_it 0.707 r_mcbond_other 0.706 r_chiral_restr 0.081 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d 0.004 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1223 Nucleic Acid Atoms Solvent Atoms 106 Heterogen Atoms 32
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction XSCALE data scaling Coot model building