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PanDDA analysis group deposition -- Endothiapepsin changed state model for fragment F2X-Entry Library F06b
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 1.88 34.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.234 α = 90 b = 73.008 β = 109.17 c = 52.296 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 1.03 42.76 98.5 0.082 0.089 0.998 12.4 6.768 149455 18.748
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 1.24 1.32 0.92 0.801 0.869 0.771 2.21 6.04 14538
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 1.03 42.76 149455 7873 98.38 0.1662 0.16522 0.1674 0.16618 0.1555 RANDOM 13.732
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 -0.37 0.15 0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.028 r_dihedral_angle_4_deg 16.65 r_dihedral_angle_3_deg 11.301 r_dihedral_angle_1_deg 6.498 r_angle_refined_deg 1.836 r_mcangle_it 1.614 r_angle_other_deg 1.605 r_mcbond_it 1.11 r_mcbond_other 1.099 r_chiral_restr 0.094
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.028 r_dihedral_angle_4_deg 16.65 r_dihedral_angle_3_deg 11.301 r_dihedral_angle_1_deg 6.498 r_angle_refined_deg 1.836 r_mcangle_it 1.614 r_angle_other_deg 1.605 r_mcbond_it 1.11 r_mcbond_other 1.099 r_chiral_restr 0.094 r_bond_refined_d 0.016 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 2371 Nucleic Acid Atoms Solvent Atoms 183 Heterogen Atoms 72
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction REFMAC phasing PHENIX refinement