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Crystal Structure of Properdin (TSR domains N1 & 456)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 Potassium Sulphate, PEG 3350
Crystal Properties Matthews coefficient Solvent content 3.66 66.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 111.995 α = 90 b = 114.86 β = 99.56 c = 39.822 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 PIXEL DECTRIS PILATUS 6M 2018-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.9789 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.03 79.61 54.5 0.161 0.19 0.1 0.982 3.4 3.5 17424 23.66
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.03 2.305 8.7 1.249 1.482 0.784 0.469 1.5 3.4
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 2.03 79.61 16544 879 54.47 0.2136 0.2117 0.217 0.2476 0.2513 RANDOM 29.762
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] 0.07 -0.78 0.33 -0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.94 r_dihedral_angle_3_deg 16.744 r_dihedral_angle_4_deg 12.426 r_dihedral_angle_1_deg 8.802 r_angle_refined_deg 1.589 r_angle_other_deg 1.194 r_chiral_restr 0.062 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.94 r_dihedral_angle_3_deg 16.744 r_dihedral_angle_4_deg 12.426 r_dihedral_angle_1_deg 8.802 r_angle_refined_deg 1.589 r_angle_other_deg 1.194 r_chiral_restr 0.062 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2339 Nucleic Acid Atoms Solvent Atoms 116 Heterogen Atoms 130
Software Software Software Name Purpose DIALS data reduction STARANISO data scaling PHASER phasing Coot model building REFMAC refinement PDB_EXTRACT data extraction