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PanDDA analysis group deposition -- Endothiapepsin changed state model for fragment F2X-Entry Library H05a
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 1.87 34.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.277 α = 90 b = 72.544 β = 109.6 c = 52.348 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 1.05 42.69 85.7 0.053 0.057 0.999 13.86 6.713 133950 14.449
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 0.93 0.98 0.458 2.888 3.202 0.197 0.44 2.42 35017
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 1.05 42.69 133950 6998 95.89 0.1649 0.16379 0.1668 0.16488 0.1614 RANDOM 12.77
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] 0.02 -0.34 0.44 -0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.258 r_dihedral_angle_4_deg 22.693 r_dihedral_angle_1_deg 14.739 r_dihedral_angle_3_deg 11.855 r_angle_refined_deg 1.776 r_angle_other_deg 1.614 r_mcangle_it 1.543 r_mcbond_it 1.016 r_mcbond_other 1.013 r_chiral_restr 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.258 r_dihedral_angle_4_deg 22.693 r_dihedral_angle_1_deg 14.739 r_dihedral_angle_3_deg 11.855 r_angle_refined_deg 1.776 r_angle_other_deg 1.614 r_mcangle_it 1.543 r_mcbond_it 1.016 r_mcbond_other 1.013 r_chiral_restr 0.09 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2373 Nucleic Acid Atoms Solvent Atoms 280 Heterogen Atoms 164
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction REFMAC phasing PHENIX refinement