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Crystal Structures of Multidrug-Resistant Clinical Isolate 769 HIV-1 Protease Variants
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TW7 PDB ENTRY: 1TW7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.3 300 0.3-1.0 M NaCl, pH 5.5-7.5, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.47 50.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.856 α = 90 b = 44.856 β = 90 c = 105.382 γ = 90
Symmetry Space Group P 41 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 298 IMAGE PLATE RIGAKU RAXIS HTC 2004-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-D 1.54
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 2.25 27.66 0.074 14.2 3.4 5356 5356
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.37
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 PDB ENTRY: 1TW7 2.25 20 5099 238 96.35 0.2456 0.24302 0.2402 0.30415 0.2944 RANDOM 15.827
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] 0.26 0.26 -0.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.427 r_dihedral_angle_3_deg 15.345 r_dihedral_angle_4_deg 14.463 r_dihedral_angle_1_deg 8.347 r_scangle_it 4.492 r_scbond_it 3.003 r_angle_refined_deg 1.944 r_mcangle_it 1.804 r_mcbond_it 0.937 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.427 r_dihedral_angle_3_deg 15.345 r_dihedral_angle_4_deg 14.463 r_dihedral_angle_1_deg 8.347 r_scangle_it 4.492 r_scbond_it 3.003 r_angle_refined_deg 1.944 r_mcangle_it 1.804 r_mcbond_it 0.937 r_nbtor_refined 0.312 r_symmetry_vdw_refined 0.25 r_nbd_refined 0.21 r_symmetry_hbond_refined 0.155 r_chiral_restr 0.118 r_xyhbond_nbd_refined 0.094 r_bond_refined_d 0.021 r_gen_planes_refined 0.016 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 753 Nucleic Acid Atoms Solvent Atoms 10 Heterogen Atoms
Software Software Software Name Purpose CrystalClear data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling