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HIV-1 Protease Inhibitors Containing a Tertiary Alcohol in the Transition-State Mimic with Improved Cell-Based Antiviral Activity
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1D4J PDB ENTRY 1D4J
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 2 MG/ML PROTEASE, 0.7 M NACL, 100 MM MES PH5.5
Crystal Properties Matthews coefficient Solvent content 2.73 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.33 α = 90 b = 85.95 β = 90 c = 46.44 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 180 2008-02-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-3 1.0 MAX II I911-3
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 1.9 15.8 86 0.06 20.4 4.3 15805 2
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 1.9 2 87.7 0.11 10 4.1
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1D4J 1.9 25 15805 805 83 0.2146 0.2146 0.2164 0.244 0.2122 RANDOM
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] -0.319 0.794 -0.475
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25.2 c_improper_angle_d 1.2 c_angle_deg 1.19702 c_bond_d 0.005992 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25.2 c_improper_angle_d 1.2 c_angle_deg 1.19702 c_bond_d 0.005992 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot c_mcbond_it c_mcangle_it c_scbond_it c_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1512 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms 51
Software Software Software Name Purpose CNS refinement MOSFLM data reduction CCP4 data scaling CNS phasing