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Crystal structure of chemically synthesized HIV-1 protease with reduced isostere MVT-101 inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 0.1 M citrate, 0.2 M sodium phosphate, 30% (v/v) ammonium sulfate, 10% (v/v) DMSO, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.14 42.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.013 α = 90 b = 58.401 β = 90 c = 61.466 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD MARMOSAIC 300 mm CCD Si(111) Double Crystal Monochrometer. Adjustable focusing mirrors in K-B geomet
ry 2006-07-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97934 APS 23-ID-D
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 1.3 50 97.9 0.056 25.42 5.1 44991 44991
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 1.3 1.35 91.2 0.486 1.8 3.6 4108
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 1.3 20 42557 42557 2264 97.77 0.18027 0.17851 0.1881 0.21494 0.2272 RANDOM 12.657
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] -0.19 -0.32 0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.483 r_dihedral_angle_4_deg 16.371 r_dihedral_angle_3_deg 10.972 r_dihedral_angle_1_deg 6.294 r_scangle_it 5.448 r_scbond_it 4.035 r_mcangle_it 2.737 r_mcbond_it 2.039 r_angle_refined_deg 1.792 r_mcbond_other 1.376
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.483 r_dihedral_angle_4_deg 16.371 r_dihedral_angle_3_deg 10.972 r_dihedral_angle_1_deg 6.294 r_scangle_it 5.448 r_scbond_it 4.035 r_mcangle_it 2.737 r_mcbond_it 2.039 r_angle_refined_deg 1.792 r_mcbond_other 1.376 r_angle_other_deg 1.251 r_symmetry_vdw_other 0.236 r_nbd_other 0.199 r_nbd_refined 0.197 r_nbtor_refined 0.17 r_symmetry_vdw_refined 0.157 r_chiral_restr 0.109 r_symmetry_hbond_refined 0.09 r_nbtor_other 0.089 r_xyhbond_nbd_refined 0.083 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1512 Nucleic Acid Atoms Solvent Atoms 90 Heterogen Atoms 59
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling