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HIV-1 Protease Saquinavir:Ritonavir 1:5 complex structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3K4V
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 AMMONIUM SULFATE, DMSO, SODIUM CITRATE, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.86 43.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.19 α = 90 b = 62.705 β = 98.32 c = 59.296 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 100 CCD MAR CCD 165 mm 2008-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.2 ELETTRA 5.2R
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.25 10 93.3 95332 70768 2 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 FREE R 3K4V 1.25 10 2 95332 70768 5004 93.3 0.1418 0.1356 0.1302 0.1374 0.1936 0.1935 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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 62 3452.5
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.122 s_approx_iso_adps 0.091 s_zero_chiral_vol 0.071 s_similar_adp_cmpnt 0.061 s_angle_d 0.032 s_from_restr_planes 0.03 s_anti_bump_dis_restr 0.017 s_bond_d 0.013 s_rigid_bond_adp_cmpnt 0.004 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3030 Nucleic Acid Atoms Solvent Atoms 262 Heterogen Atoms 161
Software Software Software Name Purpose HKL-2000 data collection SHELX model building SHELXL-97 refinement HKL-2000 data reduction HKL-2000 data scaling SHELX phasing