☰ Navigation Tabs
Crystal structures of the SARS-coronavirus main proteinase inactivated by benzotriazole compounds
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UJ1 PDB ENTRY 1UJ1 CHAIN A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 6-8% PEG6000, 0.1 M MES PH 6.0, 3% MPD
Crystal Properties Matthews coefficient Solvent content 3.4 64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.265 α = 90 b = 81.974 β = 104.3 c = 53.418 γ = 90
Symmetry Space Group C 1 2 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 MARRESEARCH BENT MIRROR 2006-08-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 EMBL/DESY, HAMBURG X13
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.95 65 97.4 0.12 12.8 3.4 30270 2 27.95
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.95 2.02 96.8 0.44 2.4 3.4
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 (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 PDB ENTRY 1UJ1 CHAIN A 1.98 64.55 28753 1528 95.6 0.166 0.164 0.1789 0.211 0.2136 RANDOM 33.05
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] -0.51 1.45 1.18 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.362 r_dihedral_angle_4_deg 23.257 r_dihedral_angle_3_deg 13.385 r_dihedral_angle_1_deg 6.748 r_scangle_it 4.705 r_scbond_it 3.406 r_mcangle_it 2.124 r_angle_refined_deg 1.644 r_mcbond_it 1.403 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.362 r_dihedral_angle_4_deg 23.257 r_dihedral_angle_3_deg 13.385 r_dihedral_angle_1_deg 6.748 r_scangle_it 4.705 r_scbond_it 3.406 r_mcangle_it 2.124 r_angle_refined_deg 1.644 r_mcbond_it 1.403 r_nbtor_refined 0.308 r_nbd_refined 0.194 r_symmetry_vdw_refined 0.175 r_chiral_restr 0.168 r_xyhbond_nbd_refined 0.161 r_symmetry_hbond_refined 0.134 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_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 Atoms Number Protein Atoms 2371 Nucleic Acid Atoms Solvent Atoms 361 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing