☰ Navigation Tabs
Crystal Structure of multi-drug resistant HIV-1 protease PR-S17 with a substrate analog p2-NC in P41
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SGU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 298 29.5% PEG 4000, 0.2M ammonium acetate and 0.1M sodium acetate buffer at pH 4.6
Crystal Properties Matthews coefficient Solvent content 2.87 57.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.881 α = 90 b = 54.881 β = 90 c = 82.131 γ = 90
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 RAYONIX MX300-HS 2016-02-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.71 50 99.1 0.071 0.031 21.2 6.1 26117 37
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.71 1.77 95.2 0.471 0.28 0.817 2.6 3.4
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1SGU 1.71 27.46 24824 1262 98.98 0.19984 0.1983 0.231 0.2944 RANDOM 40.735
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] 0.71 0.71 -1.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.418 r_dihedral_angle_3_deg 14.326 r_dihedral_angle_4_deg 9.79 r_dihedral_angle_1_deg 7.924 r_long_range_B_refined 6.822 r_long_range_B_other 6.805 r_scangle_other 5.87 r_mcangle_it 4.1 r_mcangle_other 4.098 r_scbond_other 3.978
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.418 r_dihedral_angle_3_deg 14.326 r_dihedral_angle_4_deg 9.79 r_dihedral_angle_1_deg 7.924 r_long_range_B_refined 6.822 r_long_range_B_other 6.805 r_scangle_other 5.87 r_mcangle_it 4.1 r_mcangle_other 4.098 r_scbond_other 3.978 r_scbond_it 3.966 r_mcbond_it 3.124 r_mcbond_other 3.122 r_angle_refined_deg 2.206 r_angle_other_deg 1.171 r_chiral_restr 0.141 r_bond_refined_d 0.021 r_gen_planes_refined 0.013 r_gen_planes_other 0.005 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1522 Nucleic Acid Atoms Solvent Atoms 78 Heterogen Atoms 66
Software Software Software Name Purpose HKL-2000 data reduction HKL-2000 data scaling PHASER phasing REFMAC refinement