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Mpro from SARS-CoV-2 with R4Q R298Q double mutations
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7LKU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 20% PEG 3350, 0.1 mM benzamidine hydrochloride, 200 mM potassium formate
Crystal Properties Matthews coefficient Solvent content 2.01 38.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.136 α = 90 b = 53.802 β = 100.174 c = 45.286 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 PILATUS3 S 6M 2023-02-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.9677 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.63 57.65 83.1 0.989 6.3 6.5 12088
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.63 2.85 0.322
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.63 48.802 7174 346 85.476 0.244 0.2392 0.2392 0.336 0.3361 44.221
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] -0.527 -0.398 -0.611 1.203
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.413 r_lrange_it 19.303 r_scangle_it 17.238 r_dihedral_angle_6_deg 15.143 r_dihedral_angle_3_deg 14.999 r_mcangle_it 14.441 r_scbond_it 13.206 r_mcbond_it 10.645 r_dihedral_angle_1_deg 7.803 r_angle_refined_deg 1.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.413 r_lrange_it 19.303 r_scangle_it 17.238 r_dihedral_angle_6_deg 15.143 r_dihedral_angle_3_deg 14.999 r_mcangle_it 14.441 r_scbond_it 13.206 r_mcbond_it 10.645 r_dihedral_angle_1_deg 7.803 r_angle_refined_deg 1.6 r_nbtor_refined 0.32 r_nbd_refined 0.25 r_xyhbond_nbd_refined 0.21 r_symmetry_nbd_refined 0.19 r_symmetry_xyhbond_nbd_refined 0.074 r_chiral_restr 0.071 r_bond_refined_d 0.012 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2320 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing