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Crystal Structure of Multidrug Resistant HIV-1 Protease Clinical Isolate PR20D25N with Open Flap
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2AOI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.9 298 0.2M magnesium chloride and 20% PEG 3350.
Crystal Properties Matthews coefficient Solvent content 2.48 50.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.522 α = 90 b = 45.522 β = 90 c = 104.148 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 MARMOSAIC 300 mm CCD 2011-10-28 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 1.75 41.71 97.3 0.065 17.9 3.8 21444 2
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 1.75 1.81 98.6 0.414 4.5 3.7
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2AOI 1.75 41.71 19784 1069 97.28 0.18599 0.18434 0.1929 0.21687 0.228 RANDOM 19.826
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] -0.09 -0.09 0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.077 r_dihedral_angle_4_deg 21.919 r_dihedral_angle_3_deg 12.524 r_dihedral_angle_1_deg 7.474 r_long_range_B_refined 5.066 r_long_range_B_other 5.031 r_scangle_other 3.877 r_scbond_it 2.514 r_scbond_other 2.514 r_angle_refined_deg 2.506
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.077 r_dihedral_angle_4_deg 21.919 r_dihedral_angle_3_deg 12.524 r_dihedral_angle_1_deg 7.474 r_long_range_B_refined 5.066 r_long_range_B_other 5.031 r_scangle_other 3.877 r_scbond_it 2.514 r_scbond_other 2.514 r_angle_refined_deg 2.506 r_mcangle_other 2.159 r_mcangle_it 2.156 r_mcbond_it 1.453 r_mcbond_other 1.442 r_angle_other_deg 1.248 r_chiral_restr 0.187 r_bond_refined_d 0.031 r_gen_planes_refined 0.015 r_gen_planes_other 0.004 r_bond_other_d 0.002 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 1518 Nucleic Acid Atoms Solvent Atoms 110 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOLREP phasing HKL-2000 data scaling SERGUI data collection HKL-2000 data reduction