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Crystal structure of thioredoxin reductase from Cryptosporidium parvum in the "in" conformation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4J57
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 294.15 0.1 M Tris/HCl, 0.1 M KSCN, PEG 2000 MME, 5mM DTT
Crystal Properties Matthews coefficient Solvent content 2.27 45.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.866 α = 90 b = 74.323 β = 90 c = 188.748 γ = 90
Symmetry Space Group P 21 21 21
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 2022-11-09 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) 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 1.95 39.868 99.9 0.2 0.998 14.1 12.3 75521
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 1.95 2.02 1.229 0.831
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.95 39.868 75510 3917 99.919 0.179 0.1772 0.1861 0.2123 0.219 25.013
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] -0.769 0.061 0.708
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.454 r_dihedral_angle_4_deg 18.003 r_dihedral_angle_3_deg 12.952 r_dihedral_angle_other_3_deg 8.271 r_dihedral_angle_1_deg 7.069 r_lrange_it 5.279 r_lrange_other 5.244 r_scangle_it 4.036 r_scangle_other 4.036 r_mcangle_it 2.817
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.454 r_dihedral_angle_4_deg 18.003 r_dihedral_angle_3_deg 12.952 r_dihedral_angle_other_3_deg 8.271 r_dihedral_angle_1_deg 7.069 r_lrange_it 5.279 r_lrange_other 5.244 r_scangle_it 4.036 r_scangle_other 4.036 r_mcangle_it 2.817 r_mcangle_other 2.816 r_scbond_it 2.665 r_scbond_other 2.664 r_mcbond_it 2.009 r_mcbond_other 2.005 r_angle_refined_deg 1.523 r_angle_other_deg 1.361 r_nbd_other 0.271 r_symmetry_nbd_refined 0.222 r_nbd_refined 0.201 r_symmetry_nbd_other 0.175 r_symmetry_xyhbond_nbd_refined 0.163 r_nbtor_refined 0.162 r_xyhbond_nbd_refined 0.158 r_chiral_restr 0.078 r_symmetry_nbtor_other 0.077 r_ncsr_local_group_1 0.073 r_symmetry_xyhbond_nbd_other 0.032 r_bond_refined_d 0.009 r_bond_other_d 0.009 r_gen_planes_refined 0.007 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7546 Nucleic Acid Atoms Solvent Atoms 477 Heterogen Atoms 128
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing