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Crystal structure of atazanavir (ATV) in complex with a multidrug HIV-1 protease (V82T/I84V)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F7A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.2 300 pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.11 41.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.729 α = 90 b = 58.065 β = 90 c = 61.396 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 140 IMAGE PLATE RIGAKU RAXIS IV YALE MIRRORS 2006-02-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
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 1.6 40 93.6 0.063 19.415 3.8 23108
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 1.6 1.66 90.3 0.706 2.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 THROUGHOUT 1F7A 1.6 40 23072 23072 1162 93.6 0.194 0.192 0.2024 0.217 0.2296 RANDOM 26.86
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] -0.31 -0.22 0.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.878 r_dihedral_angle_3_deg 10.19 r_dihedral_angle_4_deg 8.633 r_dihedral_angle_1_deg 6.234 r_scangle_it 2.141 r_scbond_it 1.462 r_angle_refined_deg 1.349 r_mcangle_it 0.798 r_angle_other_deg 0.706 r_mcbond_it 0.649
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.878 r_dihedral_angle_3_deg 10.19 r_dihedral_angle_4_deg 8.633 r_dihedral_angle_1_deg 6.234 r_scangle_it 2.141 r_scbond_it 1.462 r_angle_refined_deg 1.349 r_mcangle_it 0.798 r_angle_other_deg 0.706 r_mcbond_it 0.649 r_symmetry_vdw_other 0.206 r_symmetry_vdw_refined 0.202 r_nbd_refined 0.192 r_symmetry_hbond_refined 0.185 r_nbd_other 0.177 r_nbtor_refined 0.172 r_mcbond_other 0.146 r_xyhbond_nbd_refined 0.129 r_nbtor_other 0.08 r_chiral_restr 0.076 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other 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 133 Heterogen Atoms 85
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction AMoRE phasing