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PanDDA analysis group deposition -- Crystal Structure of ZIKV NS2B-NS3 protease in complex with ASAP-0014668-001
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.8 298 30% w/v PEG 2000, 0.2M Ammonium sulfate, 0.1M acetate (pH 4.8)
Crystal Properties Matthews coefficient Solvent content 2.11 41.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.514 α = 90 b = 42.514 β = 90 c = 216.443 γ = 90
Symmetry Space Group P 43 2 2
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 EIGER2 XE 9M 2023-09-19 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 1.59 216.43 100 0.135 0.138 0.028 0.999 8.5 25.5 28124
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 1.59 1.62 99.1 6.191 6.328 1.298 0.344 23.5
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 1.59 54.11 24031 1303 90.4 0.25576 0.25412 0.2612 0.28683 0.2881 RANDOM 43.067
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] -0.59 -0.59 1.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.447 r_dihedral_angle_4_deg 18.382 r_long_range_B_refined 17.205 r_long_range_B_other 17.184 r_dihedral_angle_3_deg 15.576 r_dihedral_angle_1_deg 9.094 r_angle_refined_deg 2.128 r_scangle_other 2.075 r_mcangle_it 1.974 r_mcangle_other 1.973
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.447 r_dihedral_angle_4_deg 18.382 r_long_range_B_refined 17.205 r_long_range_B_other 17.184 r_dihedral_angle_3_deg 15.576 r_dihedral_angle_1_deg 9.094 r_angle_refined_deg 2.128 r_scangle_other 2.075 r_mcangle_it 1.974 r_mcangle_other 1.973 r_angle_other_deg 1.59 r_scbond_it 1.165 r_scbond_other 1.165 r_mcbond_other 1 r_mcbond_it 0.995 r_chiral_restr 0.085 r_bond_refined_d 0.024 r_bond_other_d 0.014 r_gen_planes_refined 0.014 r_gen_planes_other 0.003 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 1476 Nucleic Acid Atoms Solvent Atoms 98 Heterogen Atoms 50
Software Software Software Name Purpose REFMAC refinement BUSTER refinement Aimless data scaling PHASER phasing XDS data reduction XDS data reduction XDS data reduction XDS data reduction XDS data reduction