8ULD

SARA CoV-2 3C-like protease in complex with GSK3487016A


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION6.42950.1M MES pH6.4, 22% PEG400
Crystal Properties
Matthews coefficientSolvent content
3.2161.74

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 108.835α = 90
b = 81.918β = 104.29
c = 53.786γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 16M2016-02-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID1.0000APS22-ID

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)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.864.795.30.0460.0530.0260.99913.64.140329
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)RedundancyNumber Unique Reflections (All)
11.81.91000.6830.7820.3770.8222.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.829.5636753279893.380.216760.214680.24419RANDOM42.678
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]
-1.221.470.340.12
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.171
r_dihedral_angle_4_deg16.469
r_dihedral_angle_3_deg12.423
r_dihedral_angle_1_deg5.639
r_scangle_it3.264
r_mcangle_it2.733
r_scbond_it2.052
r_mcbond_it1.71
r_mcbond_other1.709
r_angle_refined_deg1.162
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.171
r_dihedral_angle_4_deg16.469
r_dihedral_angle_3_deg12.423
r_dihedral_angle_1_deg5.639
r_scangle_it3.264
r_mcangle_it2.733
r_scbond_it2.052
r_mcbond_it1.71
r_mcbond_other1.709
r_angle_refined_deg1.162
r_angle_other_deg0.744
r_chiral_restr0.069
r_bond_refined_d0.007
r_gen_planes_refined0.004
r_bond_other_d0.002
r_gen_planes_other0.001
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_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2350
Nucleic Acid Atoms
Solvent Atoms112
Heterogen Atoms55

Software

Software
Software NamePurpose
HKL-2000data reduction
MOLREPphasing
SCALEPACKdata scaling
REFMACrefinement