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PanDDA analysis group deposition -- Crystal Structure of Enterovirus D68 3C Protease in complex with Z1980894300
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.14 298 25% PEG 3350, 0.1M Tris, 0.2M Ammonium acetate
Crystal Properties Matthews coefficient Solvent content 2.45 49.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.761 α = 90 b = 62.387 β = 90 c = 147.665 γ = 90
Symmetry Space Group P 21 21 21
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 PILATUS 6M 2023-01-25 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92124 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 1.45 37.01 99.7 0.098 0.102 0.028 0.998 9.5 12.6 70789
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.45 1.48 96.4 2.406 2.542 0.808 0.427 9.5
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 MOLECULAR REPLACEMENT THROUGHOUT 1.45 37.03 65877 2991 96.99 0.19145 0.1907 0.1905 0.20655 0.207 RANDOM 25.708
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] -0.31 0.04 0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.243 r_dihedral_angle_3_deg 15.416 r_dihedral_angle_4_deg 15.3 r_dihedral_angle_1_deg 6.947 r_long_range_B_refined 6.886 r_long_range_B_other 6.718 r_scangle_other 4.835 r_mcangle_other 3.327 r_mcangle_it 3.324 r_scbond_it 2.845
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.243 r_dihedral_angle_3_deg 15.416 r_dihedral_angle_4_deg 15.3 r_dihedral_angle_1_deg 6.947 r_long_range_B_refined 6.886 r_long_range_B_other 6.718 r_scangle_other 4.835 r_mcangle_other 3.327 r_mcangle_it 3.324 r_scbond_it 2.845 r_scbond_other 2.845 r_mcbond_other 2.086 r_mcbond_it 2.084 r_angle_refined_deg 1.583 r_angle_other_deg 1.365 r_chiral_restr 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2808 Nucleic Acid Atoms Solvent Atoms 314 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement BUSTER refinement Aimless data scaling PHASER phasing XDS data reduction