☰ Navigation Tabs
Crystal structure of catalytically inactive MERS-CoV 3CL Protease (C148A) in spacegroup C2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2YNA 2YNA chain A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 20.3 mg/mL protein; well solution: Morpheus Screen Condition H10, 0.1M Tris-Bis Tris pH 8.5, 0.1M amino acids, 30% v/v ethylene glycol-polyethylene glycol 8000
Crystal Properties Matthews coefficient Solvent content 2.6 52.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 131.695 α = 90 b = 91.447 β = 106.64 c = 120.339 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 2014-08-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.55 50 99.9 0.034 27.1 3.8 197587
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 1.55 1.59 100 0.41 2 3.6
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 2YNA chain A 1.55 50 187620 9952 99.77 0.18696 0.18547 0.1918 0.21552 0.2205 RANDOM 16.709
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] 0.06 -0.51 0.46 -0.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.032 r_dihedral_angle_4_deg 14.987 r_dihedral_angle_3_deg 12.949 r_dihedral_angle_1_deg 6.359 r_scangle_it 3.261 r_scbond_it 2.125 r_mcangle_it 1.413 r_angle_refined_deg 1.397 r_angle_other_deg 0.898 r_mcbond_it 0.803
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.032 r_dihedral_angle_4_deg 14.987 r_dihedral_angle_3_deg 12.949 r_dihedral_angle_1_deg 6.359 r_scangle_it 3.261 r_scbond_it 2.125 r_mcangle_it 1.413 r_angle_refined_deg 1.397 r_angle_other_deg 0.898 r_mcbond_it 0.803 r_mcbond_other 0.206 r_chiral_restr 0.086 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_gen_planes_other 0.003 r_bond_other_d 0.001 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 Atoms Number Protein Atoms 9266 Nucleic Acid Atoms Solvent Atoms 1638 Heterogen Atoms 72
Software Software Software Name Purpose REFMAC refinement