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PanDDA analysis group deposition -- Endothiapepsin ground state model 45
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 1.91 35.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.495 α = 90 b = 73.17 β = 109.34 c = 52.731 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 1.09 49.8 99 0.075 0.082 0.998 10.5 6.672 128850 18.542
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 1.08 1.15 0.953 1.729 1.88 0.51 0.84 6.13 22138
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 1.09 49.8 128850 6908 99.57 0.1661 0.16577 0.1656 0.16612 0.1664 RANDOM 14.185
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 -0.12 0.22 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.522 r_dihedral_angle_4_deg 17.576 r_dihedral_angle_3_deg 8.607 r_dihedral_angle_1_deg 6.942 r_angle_refined_deg 1.993 r_mcangle_it 1.646 r_angle_other_deg 1.57 r_mcbond_it 1.167 r_mcbond_other 1.164 r_chiral_restr 0.104
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.522 r_dihedral_angle_4_deg 17.576 r_dihedral_angle_3_deg 8.607 r_dihedral_angle_1_deg 6.942 r_angle_refined_deg 1.993 r_mcangle_it 1.646 r_angle_other_deg 1.57 r_mcbond_it 1.167 r_mcbond_other 1.164 r_chiral_restr 0.104 r_bond_refined_d 0.016 r_gen_planes_refined 0.011 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2369 Nucleic Acid Atoms Solvent Atoms 341 Heterogen Atoms 63
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction REFMAC phasing PHENIX refinement