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PanDDA analysis group deposition -- Endothiapepsin ground state model 12
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 35.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.302 α = 90 b = 72.868 β = 109.36 c = 52.688 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 49.76 90.1 0.131 0.143 0.998 7.1 6.007 112562 17.509
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 1.09 1.16 0.408 2.906 3.23 0.206 0.4 1.86 21442
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 49.76 112562 6047 89.44 0.3392 0.33859 0.3421 0.33919 0.3492 RANDOM 12.823
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] -0.13 -0.7 0.57 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.447 r_dihedral_angle_4_deg 15.388 r_dihedral_angle_3_deg 9.339 r_dihedral_angle_1_deg 7.363 r_angle_refined_deg 1.766 r_mcangle_it 1.622 r_angle_other_deg 1.529 r_mcbond_other 1.17 r_mcbond_it 1.169 r_chiral_restr 0.085
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.447 r_dihedral_angle_4_deg 15.388 r_dihedral_angle_3_deg 9.339 r_dihedral_angle_1_deg 7.363 r_angle_refined_deg 1.766 r_mcangle_it 1.622 r_angle_other_deg 1.529 r_mcbond_other 1.17 r_mcbond_it 1.169 r_chiral_restr 0.085 r_gen_planes_refined 0.013 r_bond_refined_d 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 Heterogen Atoms 63
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction REFMAC phasing PHENIX refinement