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SARS-CoV-2 nucleocapsid C-terminal domain in complex with BCY00018176
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 0.1 M Na Acet 4.6 pH,25 % w/v PEG 4K., 0.2 M (NH4)2SO4
Crystal Properties Matthews coefficient Solvent content 2.26 45.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.043 α = 90 b = 73.043 β = 90 c = 116.864 γ = 90
Symmetry Space Group P 43 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 EIGER2 XE 16M 2021-11-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
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 1.46 61.94 100 0.206 0.208 0.026 1 18.6 64.8 55845
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 1.46 1.54 100 9.656 9.73 1.196 0.421 65.3
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 1.46 61.94 52919 2705 99.75 0.1844 0.18285 0.189 0.21449 0.219 RANDOM 25.798
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] -0.41 -0.41 0.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.541 r_dihedral_angle_4_deg 20.198 r_dihedral_angle_3_deg 12.531 r_dihedral_angle_1_deg 7.071 r_long_range_B_refined 6.474 r_long_range_B_other 6.26 r_scangle_other 4.877 r_angle_other_deg 4.098 r_scbond_it 3.222 r_scbond_other 3.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.541 r_dihedral_angle_4_deg 20.198 r_dihedral_angle_3_deg 12.531 r_dihedral_angle_1_deg 7.071 r_long_range_B_refined 6.474 r_long_range_B_other 6.26 r_scangle_other 4.877 r_angle_other_deg 4.098 r_scbond_it 3.222 r_scbond_other 3.22 r_mcangle_other 3.102 r_mcangle_it 3.101 r_mcbond_it 2.215 r_mcbond_other 2.211 r_angle_refined_deg 1.81 r_chiral_restr 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_bond_other_d 0.004 r_gen_planes_other 0.002 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 2063 Nucleic Acid Atoms Solvent Atoms 340 Heterogen Atoms 50
Software Software Software Name Purpose REFMAC refinement BUSTER refinement Aimless data scaling XDS data reduction PHASER phasing PDB_EXTRACT data extraction