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Crystal Structure of Cyclophilin TgCyp23 from Toxoplasma gondii in complex with Cyclosporin A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.1M citric acid pH 3.5, and 25% polyethylene glycol 3350
Crystal Properties Matthews coefficient Solvent content 2.13 42.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.4 α = 90 b = 119.424 β = 103.62 c = 46.35 γ = 90
Symmetry Space Group P 1 21 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 PILATUS 6M 2022-05-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.97918 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.1 45.09 99.8 0.043 1 16.8 6.6 154928
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.1 1.12 99 1.13 0.71 1.6 6.3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION AB INITIO PHASING THROUGHOUT 1.1 45.09 154928 8309 99.76 0.13359 0.13257 0.1417 0.15301 0.161 RANDOM 18.304
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] 0.56 1 -0.67 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.295 r_dihedral_angle_4_deg 16.589 r_dihedral_angle_3_deg 9.964 r_dihedral_angle_1_deg 6.337 r_long_range_B_refined 2.838 r_long_range_B_other 2.314 r_rigid_bond_restr 1.771 r_scangle_other 1.649 r_angle_refined_deg 1.571 r_mcangle_it 1.483
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.295 r_dihedral_angle_4_deg 16.589 r_dihedral_angle_3_deg 9.964 r_dihedral_angle_1_deg 6.337 r_long_range_B_refined 2.838 r_long_range_B_other 2.314 r_rigid_bond_restr 1.771 r_scangle_other 1.649 r_angle_refined_deg 1.571 r_mcangle_it 1.483 r_mcangle_other 1.483 r_scbond_it 1.3 r_scbond_other 1.3 r_angle_other_deg 1.17 r_mcbond_it 1.073 r_mcbond_other 1.073 r_chiral_restr 0.105 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3256 Nucleic Acid Atoms Solvent Atoms 470 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing