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Crystal structure of atazanavir (ATV) in complex with I50L/A71V drug-resistant HIV-1 protease
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 VAPOR DIFFUSION, HANGING DROP 6.2 300 pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.09 41.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.231 α = 90 b = 59.54 β = 82.22 c = 59.863 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 200 IMAGE PLATE RIGAKU RAXIS IV Yale Mirrors 2007-08-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
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 2.1 50 95.8 0.069 14.007 3 56701 20006
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 2.1 2.18 90.1 0.493 1867
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 THROUGHOUT 1F7A 2.1 40 20000 1016 95.79 0.183 0.179 0.1878 0.249 0.2502 RANDOM 38.666
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] -2.13 0.25 1.04 1.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.71 r_dihedral_angle_4_deg 20.246 r_dihedral_angle_3_deg 15.567 r_dihedral_angle_1_deg 7.243 r_scangle_it 2.274 r_scbond_it 1.585 r_angle_refined_deg 1.413 r_mcangle_it 1.068 r_mcbond_it 0.888 r_angle_other_deg 0.719
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.71 r_dihedral_angle_4_deg 20.246 r_dihedral_angle_3_deg 15.567 r_dihedral_angle_1_deg 7.243 r_scangle_it 2.274 r_scbond_it 1.585 r_angle_refined_deg 1.413 r_mcangle_it 1.068 r_mcbond_it 0.888 r_angle_other_deg 0.719 r_symmetry_vdw_other 0.248 r_symmetry_hbond_refined 0.215 r_nbd_other 0.202 r_symmetry_vdw_refined 0.198 r_nbd_refined 0.189 r_xyhbond_nbd_refined 0.182 r_nbtor_refined 0.174 r_mcbond_other 0.164 r_nbtor_other 0.087 r_chiral_restr 0.08 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2937 Nucleic Acid Atoms Solvent Atoms 156 Heterogen Atoms 137
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction AMoRE phasing