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Crystal Structure of HIV-1 Protease Mutant V82A with novel P1'-Ligands GRL-02031
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3H5B PDB entry 3H5B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.8 298 0.6M NaCl, 0.1M Sodium Acetate buffer pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.31 54.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.644 α = 90 b = 86.459 β = 90 c = 45.441 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 IMAGE PLATE MAR scanner 300 mm plate 2008-07-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1 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 1.43 50 90.5 0.098 12.1 4.5 39482 39482
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 1.43 1.48 57 0.45 2 2.1 2441
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 3H5B 1.43 10 39265 39265 1968 90.7 0.1703 0.1703 0.1675 0.1649 0.2181 0.2054 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 16 1631 1657.15
RMS Deviations Key Refinement Restraint Deviation s_approx_iso_adps 0.072 s_similar_adp_cmpnt 0.057 s_non_zero_chiral_vol 0.055 s_zero_chiral_vol 0.047 s_angle_d 0.029 s_from_restr_planes 0.0281 s_anti_bump_dis_restr 0.024 s_bond_d 0.01 s_rigid_bond_adp_cmpnt 0.003 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1508 Nucleic Acid Atoms Solvent Atoms 128 Heterogen Atoms 51
Software Software Software Name Purpose HKL-2000 data collection AMoRE phasing SHELXL-97 refinement HKL-2000 data reduction HKL-2000 data scaling