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Group deposition of Coxsackievirus A16 (G-10) 2A protease in complex with inhibitors from the ASAP AViDD centre -- Crystal structure of Coxsackievirus A16 (G-10) 2A protease in complex with ASAP-0030249-001 (A71EV2A-x2293)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8POA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.05 293.15 0.1 M MES, pH 6.05, 16 % PEG 20,000
Crystal Properties Matthews coefficient Solvent content 2.52 51.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.742 α = 90 b = 56.733 β = 94.96 c = 32.737 γ = 90
Symmetry Space Group C 1 2 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 EIGER2 XE 9M 2024-09-05 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92134 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 1.27 47.45 85.6 0.055 0.06 0.023 0.999 15.2 6.2 35546
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 1.27 1.29 34.6 1.706 1.989 1.013 0.327 3.7
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.27 47.43 33633 1752 85.06 0.20238 0.20044 0.23862 0.2692 RANDOM 26.193
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] 0.83 0.91 -0.31 -0.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.587 r_dihedral_angle_4_deg 22.17 r_dihedral_angle_3_deg 14.074 r_long_range_B_refined 8.631 r_long_range_B_other 8.629 r_dihedral_angle_1_deg 7.253 r_mcangle_other 2.934 r_mcangle_it 2.933 r_scangle_other 2.768 r_scbond_other 1.869
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.587 r_dihedral_angle_4_deg 22.17 r_dihedral_angle_3_deg 14.074 r_long_range_B_refined 8.631 r_long_range_B_other 8.629 r_dihedral_angle_1_deg 7.253 r_mcangle_other 2.934 r_mcangle_it 2.933 r_scangle_other 2.768 r_scbond_other 1.869 r_scbond_it 1.861 r_mcbond_other 1.702 r_mcbond_it 1.662 r_angle_refined_deg 1.593 r_angle_other_deg 1.36 r_chiral_restr 0.073 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 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 1083 Nucleic Acid Atoms Solvent Atoms 199 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement REFMAC5 refinement Aimless data scaling PHASER phasing XDS data reduction