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Crystal structure of SARS CoV-2 3CLpro (Mpro) with ALG-097558
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Proprietary model
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 293 PCB, PEG 1500
Crystal Properties Matthews coefficient Solvent content 1.97 37.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.312 α = 90 b = 53.102 β = 103.3 c = 45.613 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 EIGER X 16M 2022-07-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.999992 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 1.959 55.623 94.5 0.098 0.098 0.059 0.996 7.8 3.6 18236
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.959 1.993 99.9 0.989 0.989 0.587 0.517 1.4 3.8
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 1.96 55.62 16388 1843 94.43 0.2147 0.2114 0.2153 0.243 0.2489 RANDOM 35.709
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] 1.31 -0.43 -0.04 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.249 r_dihedral_angle_4_deg 17.335 r_dihedral_angle_3_deg 11.942 r_dihedral_angle_1_deg 6.399 r_mcangle_it 2.207 r_mcbond_it 1.292 r_mcbond_other 1.292 r_angle_refined_deg 1.208 r_angle_other_deg 0.957 r_chiral_restr 0.069
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.249 r_dihedral_angle_4_deg 17.335 r_dihedral_angle_3_deg 11.942 r_dihedral_angle_1_deg 6.399 r_mcangle_it 2.207 r_mcbond_it 1.292 r_mcbond_other 1.292 r_angle_refined_deg 1.208 r_angle_other_deg 0.957 r_chiral_restr 0.069 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2347 Nucleic Acid Atoms Solvent Atoms 69 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction autoPROC data reduction XDS data reduction Aimless data scaling PHASER phasing