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Crystal structure of NS3/4A protease variant D168A in complex with MK-5172
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop, vapor diffusion 6.2 295 20-25% PEG 3350, 0.1M MES (pH 6.5), 4% ammonium sulfate, hanging drop, vapor diffusion, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.3 46.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.004 α = 90 b = 103.56 β = 112.04 c = 73.51 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 2011-04-22 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97872 APS 23-ID-D
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 2.19 30 95.9 0.079 9.4 2.9 37671
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 2.19 2.28 94.5 0.389 2.7
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 2.19 29.22 35743 1865 94.35 0.20184 0.19877 0.1986 0.25932 0.254 RANDOM 28.325
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] 14 -7.34 -2.85 -11.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.662 r_dihedral_angle_4_deg 18.682 r_dihedral_angle_3_deg 17.406 r_dihedral_angle_1_deg 6.879 r_scangle_it 1.678 r_angle_refined_deg 1.394 r_angle_other_deg 1.347 r_scbond_it 1.093 r_mcangle_it 0.689 r_mcbond_it 0.394
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.662 r_dihedral_angle_4_deg 18.682 r_dihedral_angle_3_deg 17.406 r_dihedral_angle_1_deg 6.879 r_scangle_it 1.678 r_angle_refined_deg 1.394 r_angle_other_deg 1.347 r_scbond_it 1.093 r_mcangle_it 0.689 r_mcbond_it 0.394 r_mcbond_other 0.088 r_chiral_restr 0.074 r_bond_refined_d 0.009 r_bond_other_d 0.008 r_gen_planes_refined 0.006 r_gen_planes_other 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5303 Nucleic Acid Atoms Solvent Atoms 141 Heterogen Atoms 225
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction