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PanDDA analysis group deposition -- Endothiapepsin changed state model for fragment F2X-Entry Library C11b
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 1.9 35.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.268 α = 90 b = 73.162 β = 109.25 c = 52.633 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 1.12 49.74 98.8 0.077 0.084 0.998 10.39 6.713 115210 18.119
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 1.12 1.19 0.934 1.351 1.471 0.391 1.06 6.01 19907
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 1.12 49.74 115210 6191 98.51 0.1641 0.16374 0.3112 0.16408 0.3151 RANDOM 13.938
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] -0.33 -0.33 0.29 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.969 r_dihedral_angle_4_deg 19.026 r_dihedral_angle_1_deg 17.944 r_dihedral_angle_3_deg 10.901 r_angle_refined_deg 2.101 r_mcangle_it 1.698 r_angle_other_deg 1.604 r_mcbond_it 1.149 r_mcbond_other 1.144 r_chiral_restr 0.096
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.969 r_dihedral_angle_4_deg 19.026 r_dihedral_angle_1_deg 17.944 r_dihedral_angle_3_deg 10.901 r_angle_refined_deg 2.101 r_mcangle_it 1.698 r_angle_other_deg 1.604 r_mcbond_it 1.149 r_mcbond_other 1.144 r_chiral_restr 0.096 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_bond_other_d 0.004 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2373 Nucleic Acid Atoms Solvent Atoms 263 Heterogen Atoms 66
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction REFMAC phasing PHENIX refinement