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PanDDA analysis group deposition -- Crystal Structure of Enterovirus D68 3C Protease in complex with Z1266933824
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 49.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.819 α = 90 b = 62.424 β = 90 c = 147.573 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 2023-01-24 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 1.47 147.69 99.4 0.113 0.118 0.033 0.998 7 12.6 68600
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 1.47 1.49 88.6 2.291 2.421 0.775 0.244 9.6
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 1.47 73.79 59337 2896 90.88 0.1991 0.19806 0.212 0.21935 0.2316 RANDOM 25.203
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] -0.62 1.08 -0.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.657 r_dihedral_angle_4_deg 15.264 r_dihedral_angle_3_deg 13.506 r_dihedral_angle_1_deg 7.389 r_long_range_B_refined 6.783 r_long_range_B_other 6.729 r_scangle_other 4.73 r_mcangle_other 3.156 r_mcangle_it 3.154 r_scbond_it 2.989
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.657 r_dihedral_angle_4_deg 15.264 r_dihedral_angle_3_deg 13.506 r_dihedral_angle_1_deg 7.389 r_long_range_B_refined 6.783 r_long_range_B_other 6.729 r_scangle_other 4.73 r_mcangle_other 3.156 r_mcangle_it 3.154 r_scbond_it 2.989 r_scbond_other 2.989 r_mcbond_other 2.098 r_mcbond_it 2.096 r_angle_refined_deg 1.536 r_angle_other_deg 1.36 r_chiral_restr 0.076 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 302 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PHASER phasing XDS data reduction