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Crystal structure of wild type HIV-1 protease in complex with darunavir
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 1.6 M Ammonium sulfate, 0.1 M MES monohydrate (pH 6.0), VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.12 42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.15 α = 90 b = 62.15 β = 90 c = 82.191 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 95 CCD RIGAKU SATURN A200 2012-09-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54
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 29.07 0.069 10.4 13144
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 1.95 24.79 12470 646 99.55 0.19354 0.19187 0.1923 0.22779 0.2267 RANDOM 26.256
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] -0.02 -0.01 -0.02 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.666 r_dihedral_angle_4_deg 24.477 r_dihedral_angle_3_deg 17.923 r_dihedral_angle_1_deg 5.951 r_scangle_it 5.675 r_scbond_it 3.569 r_rigid_bond_restr 3.219 r_mcangle_it 2.306 r_angle_refined_deg 1.456 r_mcbond_it 1.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.666 r_dihedral_angle_4_deg 24.477 r_dihedral_angle_3_deg 17.923 r_dihedral_angle_1_deg 5.951 r_scangle_it 5.675 r_scbond_it 3.569 r_rigid_bond_restr 3.219 r_mcangle_it 2.306 r_angle_refined_deg 1.456 r_mcbond_it 1.23 r_chiral_restr 0.091 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1516 Nucleic Acid Atoms Solvent Atoms 196 Heterogen Atoms 38
Software Software Software Name Purpose StructureStudio data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling