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X-Ray Crystal Structure of the SARS Coronavirus Main Protease
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LVO Homology model based on 1LVO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 294 PEG 20K, sodium chloride, BME, methionine, glycerol, pH 6.5, VAPOR DIFFUSION, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.5 50.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.244 α = 90 b = 98.287 β = 102.86 c = 67.822 γ = 90
Symmetry Space Group P 1 21 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 CCD MAR CCD 165 mm 2003-07-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.9198 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 1.86 26.3 98.2 0.075 0.075 7.8 13.7 54757 54747 1 24.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.86 1.96 91.6 0.505 0.505 2.9 5.6 7398
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 Homology model based on 1LVO 1.86 5 2 51835 51825 2630 0.207 0.207 0.194 0.1938 0.249 0.2414 Random 31
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]
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 4.12 r_scbond_it 2.822 r_mcangle_it 2.401 r_angle_refined_deg 1.643 r_mcbond_it 1.478 r_bond_refined_d 0.018
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4640 Nucleic Acid Atoms Solvent Atoms 464 Heterogen Atoms
Software Software Software Name Purpose MAR345 data collection SCALA data scaling EPMR phasing REFMAC refinement CCP4 data scaling