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Crystal structure of Cryptosporidium parvum Thioredoxin Reductase in complex with the auranofin analogue AuP(OCH3)3Cl
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9G92
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 294.15 0.1 M Tris/HCl, 0.1 M KSCN, PEG 2000 MME
Crystal Properties Matthews coefficient Solvent content 2.29 46.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.296 α = 90 b = 73.251 β = 90.59 c = 189.519 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 2023-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 1.0 ELETTRA 11.2C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.2 45.56 98.67 0.999 8.84 6.7 102375
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.279 0.537
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 MOLECULAR REPLACEMENT THROUGHOUT 2.2 45.5 97310 5056 98.68 0.206 0.20418 0.2078 0.2414 0.2428 RANDOM 44.449
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] -0.2 -1.29 0.33 -0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.518 r_dihedral_angle_4_deg 17.375 r_dihedral_angle_3_deg 14.792 r_long_range_B_other 8.708 r_long_range_B_refined 8.703 r_dihedral_angle_1_deg 7.169 r_scangle_other 7.143 r_mcangle_it 5.738 r_mcangle_other 5.738 r_scbond_it 4.928
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.518 r_dihedral_angle_4_deg 17.375 r_dihedral_angle_3_deg 14.792 r_long_range_B_other 8.708 r_long_range_B_refined 8.703 r_dihedral_angle_1_deg 7.169 r_scangle_other 7.143 r_mcangle_it 5.738 r_mcangle_other 5.738 r_scbond_it 4.928 r_scbond_other 4.928 r_mcbond_it 4.266 r_mcbond_other 4.263 r_angle_refined_deg 1.52 r_angle_other_deg 1.283 r_chiral_restr 0.071 r_bond_refined_d 0.009 r_bond_other_d 0.008 r_gen_planes_refined 0.007 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14886 Nucleic Acid Atoms Solvent Atoms 260 Heterogen Atoms 215
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing