☰ Navigation Tabs
SARS-CoV-2 with a bound inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other in-house structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 30mM sodium nitrate, 30mM disodium hydrogen phosphate, 30mM ammonium sulfate, 100mM MES-imidazole pH 6.5, 20%(w/v) PEG 550 MME, 10%(w/v) PEG 20K (Morpheus condition C1)
Crystal Properties Matthews coefficient Solvent content 2.63 53.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.87 α = 90 b = 100.43 β = 90 c = 104.53 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 EIGER X 16M 2023-06-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.0 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.897 72.421 93.3 0.125 0.036 1 13.9 12.5 37327
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.897 2.123 1.151 0.448 0.619 1.8
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.897 72.421 37327 1905 65.192 0.208 0.2052 0.2524 0.2379 33.61
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] 0.037 -0.011 -0.026
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.351 r_dihedral_angle_6_deg 15.428 r_dihedral_angle_2_deg 10.613 r_dihedral_angle_1_deg 7.97 r_lrange_it 7.689 r_lrange_other 7.683 r_scangle_it 6.241 r_scangle_other 6.24 r_mcangle_other 4.465 r_mcangle_it 4.463
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.351 r_dihedral_angle_6_deg 15.428 r_dihedral_angle_2_deg 10.613 r_dihedral_angle_1_deg 7.97 r_lrange_it 7.689 r_lrange_other 7.683 r_scangle_it 6.241 r_scangle_other 6.24 r_mcangle_other 4.465 r_mcangle_it 4.463 r_scbond_it 4.146 r_scbond_other 4.145 r_mcbond_it 3.13 r_mcbond_other 3.129 r_angle_refined_deg 1.544 r_angle_other_deg 0.518 r_nbd_refined 0.217 r_symmetry_xyhbond_nbd_refined 0.206 r_symmetry_nbd_other 0.196 r_nbtor_refined 0.182 r_nbd_other 0.169 r_symmetry_nbd_refined 0.154 r_xyhbond_nbd_refined 0.14 r_ncsr_local_group_1 0.117 r_metal_ion_refined 0.095 r_symmetry_nbtor_other 0.085 r_chiral_restr 0.071 r_bond_refined_d 0.008 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4669 Nucleic Acid Atoms Solvent Atoms 161 Heterogen Atoms 41
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction autoPROC data scaling PHASER phasing