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Crystal Structure of HIV-1 Protease Mutant I47V with novel P1'-Ligands GRL-02031
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3H5B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.2 298 NaCl/sodium acetate buffer at pH 4.2 The concentration of protein is around 1.5-1.6 mg/ml The ratio for protein/inhibitor is 1:5., VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.31 54.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.203 α = 90 b = 86.394 β = 90 c = 45.946 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 2009-02-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 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 1.25 10 94.6 0.068 19.9 6.1 61338
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 1.25 1.29 63.7 0.326 2.4 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R 3H5B 1.25 10 61145 3071 94.5 0.1479 0.1468 0.1686 0.1826 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 30 1635 1717.75
RMS Deviations Key Refinement Restraint Deviation s_approx_iso_adps 0.083 s_zero_chiral_vol 0.082 s_non_zero_chiral_vol 0.078 s_similar_adp_cmpnt 0.036 s_angle_d 0.033 s_anti_bump_dis_restr 0.033 s_from_restr_planes 0.0307 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 1510 Nucleic Acid Atoms Solvent Atoms 205 Heterogen Atoms 62
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing SHELXL-97 refinement HKL-2000 data reduction HKL-2000 data scaling