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Crystal Structure of HIV-1 L76V Protease in Complex with the Protease Inhibitor Darunavir.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 295 126mM Phosphate buffer pH 6.2, 63mM Sodium Citrate, 18-33% Ammonium Sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.1 41.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.719 α = 90 b = 57.714 β = 90 c = 62.03 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV Osmic mirrors 2008-07-09 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.54178
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 1.76 50 98 0.085 9.2 7.2 18412
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) 1.76 1.82 94.8 0.388 3.9 1739
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.76 23.25 17434 937 97.79 0.18026 0.17814 0.21902 0.2257 RANDOM 20.157
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] -1.67 0.5 1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.67 r_dihedral_angle_4_deg 16.11 r_dihedral_angle_3_deg 9.621 r_dihedral_angle_1_deg 6.083 r_scangle_it 2.402 r_scbond_it 1.538 r_angle_refined_deg 1.294 r_mcangle_it 1.225 r_angle_other_deg 0.814 r_mcbond_it 0.682
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.67 r_dihedral_angle_4_deg 16.11 r_dihedral_angle_3_deg 9.621 r_dihedral_angle_1_deg 6.083 r_scangle_it 2.402 r_scbond_it 1.538 r_angle_refined_deg 1.294 r_mcangle_it 1.225 r_angle_other_deg 0.814 r_mcbond_it 0.682 r_mcbond_other 0.144 r_chiral_restr 0.076 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 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 1474 Nucleic Acid Atoms Solvent Atoms 144 Heterogen Atoms 86
Software Software Software Name Purpose SCALEPACK data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction