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The Influence of I47A Mutation on Reduced Susceptibility to the Protease Inhibitor Lopinavir
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1U8G PDB ENTRY 1U8G
Crystallization Crystal Properties Matthews coefficient Solvent content 2.14 42.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.254 α = 90 b = 62.254 β = 90 c = 82.15 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 IMAGE PLATE MAR scanner 345 mm plate M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR591
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 2.3 97.8 0.077 14.9 4.4 7953 38.9
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) 2.3 2.42 84.9 0.455 3 4.1 996
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 1U8G 2.31 53.92 7558 366 99.61 0.20215 0.19948 0.1962 0.25407 0.2072 RANDOM 28.01
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] 0.5 0.25 0.5 -0.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.058 r_dihedral_angle_3_deg 15.305 r_dihedral_angle_4_deg 15.282 r_dihedral_angle_1_deg 6.809 r_scangle_it 2.848 r_scbond_it 1.752 r_angle_refined_deg 1.51 r_mcangle_it 1.284 r_mcbond_it 0.857 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.058 r_dihedral_angle_3_deg 15.305 r_dihedral_angle_4_deg 15.282 r_dihedral_angle_1_deg 6.809 r_scangle_it 2.848 r_scbond_it 1.752 r_angle_refined_deg 1.51 r_mcangle_it 1.284 r_mcbond_it 0.857 r_nbtor_refined 0.314 r_symmetry_vdw_refined 0.313 r_nbd_refined 0.224 r_xyhbond_nbd_refined 0.204 r_symmetry_hbond_refined 0.154 r_chiral_restr 0.095 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1520 Nucleic Acid Atoms Solvent Atoms 57 Heterogen Atoms 94
Software Software Software Name Purpose REFMAC refinement MAR345dtb data collection MOSFLM data reduction SCALA data scaling MOLREP phasing