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Wild Type HIV-1 Protease with potent Antiviral inhibitor GRL-0105A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QCI PDB ENTRY 2QCI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 4.2 298 Crystal was grown by the hanging-drop vapor-diffusion method at r temperature, from a 2.0mg/ml protein solution at pH4.2 with 0.1M sodium acetate, 1.5M sodium chloride. The inhibitor was mixed with protease in a ratio 15:1, EVAPORATION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.67 53.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.003 α = 90 b = 86.338 β = 90 c = 45.833 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 100 CCD MARMOSAIC 300 mm CCD 2005-11-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 0.8 APS 22-ID
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 1.07 50 88.1 0.07 14.6 3.6 90315 90315
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) 1.07 1.11 51.3 0.418 2.1 2.3
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 FREE R PDB ENTRY 2QCI 1.07 10 89984 89984 4510 88.3 0.1519 0.1519 0.1505 0.1557 0.1769 0.1763 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 35 1641 1714.89
RMS Deviations Key Refinement Restraint Deviation s_approx_iso_adps 0.088 s_zero_chiral_vol 0.04 s_non_zero_chiral_vol 0.039 s_similar_adp_cmpnt 0.038 s_angle_d 0.034 s_from_restr_planes 0.03 s_anti_bump_dis_restr 0.03 s_bond_d 0.015 s_rigid_bond_adp_cmpnt 0.005 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1668 Nucleic Acid Atoms Solvent Atoms 203 Heterogen Atoms 84
Software Software Software Name Purpose AMoRE phasing SHELXL-97 refinement MAR345 data collection HKL-2000 data reduction HKL-2000 data scaling