☰ Navigation Tabs
Ternary complex CR3022 H11-H4 and RBD (SARS-CoV-2)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6ZBY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 mixing 0.2 uL of the 18 mg/mL complex with 0.1 uL of the crystallization buffer containing 0.2 M Sodium acetate trihydrate, 0.1 M MES pH 6.0, 20 % w/v PEG 8000.
Crystal Properties Matthews coefficient Solvent content 4.22 70.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 156.411 α = 90 b = 156.411 β = 90 c = 116.205 γ = 90
Symmetry Space Group P 42 21 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 PILATUS 6M-F 2020-06-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.98 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 3.31 80.253 100 0.091 1 0.018 25.6 22105
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 3.31 3.4 3.9 0.77 0.3 0.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 6ZBY 3.31 80.243 22065 1088 99.964 0.263 0.2609 0.2652 0.3052 0.3129 134
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] -1.696 -1.696 3.392
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.97 r_dihedral_angle_1_deg 21.543 r_dihedral_angle_other_3_deg 20.671 r_lrange_it 19.804 r_lrange_other 19.804 r_dihedral_angle_4_deg 17.991 r_dihedral_angle_3_deg 17.099 r_mcangle_it 12.289 r_mcangle_other 12.288 r_scangle_it 11.809
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.97 r_dihedral_angle_1_deg 21.543 r_dihedral_angle_other_3_deg 20.671 r_lrange_it 19.804 r_lrange_other 19.804 r_dihedral_angle_4_deg 17.991 r_dihedral_angle_3_deg 17.099 r_mcangle_it 12.289 r_mcangle_other 12.288 r_scangle_it 11.809 r_scangle_other 11.808 r_mcbond_it 7.791 r_mcbond_other 7.787 r_scbond_it 7.25 r_scbond_other 7.249 r_angle_refined_deg 1.626 r_angle_other_deg 1.228 r_symmetry_xyhbond_nbd_refined 0.266 r_nbd_other 0.254 r_symmetry_nbd_other 0.188 r_nbd_refined 0.185 r_symmetry_nbd_refined 0.179 r_nbtor_refined 0.174 r_xyhbond_nbd_refined 0.143 r_symmetry_nbtor_other 0.077 r_xyhbond_nbd_other 0.074 r_chiral_restr 0.059 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5856 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction pointless data scaling PHASER phasing