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Crystal structure of a complex of mutant hiv-1 protease (A71V, V82T, I84V) with a hydroxyethylamine peptidomimetic inhibitor BOC-PHE-PSI[R-CH(OH)CH2NH]-PHE-GLU-PHE-NH2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A9M PDB ENTRY 1A9M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.4 298 0.1 M Na Citrate, 1M NaCl, pH 4.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.35 47.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.409 α = 90 b = 87.419 β = 90 c = 94.9 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARRESEARCH microfocussing mirrors - testing 2000-04-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.995 25 87.6 0.061 0.061 19.4 3.2 16342 14316 -999 34
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.995 2.047 86.4 0.325 0.325 3.9 3 997
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 (All) 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 1A9M 1.995 25 14316 14316 739 87.6 0.18498 0.18498 0.18665 0.186 0.23732 0.1883 RANDOM 31.629
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] -1.43 -2.97 4.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.74 r_dihedral_angle_3_deg 16.185 r_dihedral_angle_4_deg 15.259 r_dihedral_angle_1_deg 6.78 r_scangle_it 4.224 r_scbond_it 2.627 r_mcangle_it 1.822 r_angle_refined_deg 1.697 r_mcbond_it 1.035 r_nbtor_refined 0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.74 r_dihedral_angle_3_deg 16.185 r_dihedral_angle_4_deg 15.259 r_dihedral_angle_1_deg 6.78 r_scangle_it 4.224 r_scbond_it 2.627 r_mcangle_it 1.822 r_angle_refined_deg 1.697 r_mcbond_it 1.035 r_nbtor_refined 0.315 r_symmetry_hbond_refined 0.249 r_nbd_refined 0.213 r_symmetry_vdw_refined 0.197 r_xyhbond_nbd_refined 0.157 r_chiral_restr 0.133 r_bond_refined_d 0.016 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1526 Nucleic Acid Atoms Solvent Atoms 159 Heterogen Atoms 55
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement