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PanDDA analysis group deposition -- Endothiapepsin changed state model for fragment F2X-Entry Library H02b
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 290 0.1 M ammonium acetate, 0.1 M sodium acetate, 24-30% PEG 4000
Crystal Properties Matthews coefficient Solvent content 1.89 34.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.172 α = 90 b = 72.854 β = 109.21 c = 52.521 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 EIGER X 16M 2019-03-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX IV BEAMLINE BioMAX 0.827 MAX IV BioMAX
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 1.04 42.69 97.4 0.059 0.064 1 12.93 6.777 142033 16.695
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.04 1.1 0.848 2.813 3.05 0.252 0.6 5.58 24813
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 FOURIER SYNTHESIS THROUGHOUT 1.04 42.69 142033 7626 97.43 0.1702 0.16969 0.1791 0.17018 0.1787 RANDOM 13.664
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] -0.18 -0.29 -0.17 0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.524 r_dihedral_angle_4_deg 19.204 r_dihedral_angle_3_deg 11.277 r_dihedral_angle_1_deg 6.968 r_angle_refined_deg 1.864 r_angle_other_deg 1.621 r_mcangle_it 1.61 r_mcbond_it 1.063 r_mcbond_other 1.061 r_chiral_restr 0.088
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.524 r_dihedral_angle_4_deg 19.204 r_dihedral_angle_3_deg 11.277 r_dihedral_angle_1_deg 6.968 r_angle_refined_deg 1.864 r_angle_other_deg 1.621 r_mcangle_it 1.61 r_mcbond_it 1.063 r_mcbond_other 1.061 r_chiral_restr 0.088 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2373 Nucleic Acid Atoms Solvent Atoms 240 Heterogen Atoms 92
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction REFMAC phasing PHENIX refinement