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Inhibitor of HIV protease with unusual binding mode potently inhibiting multi-resistant protease mutants
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IZH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 294 MES, EDTA, DTT, NaCl, pH 5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.1 41.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.788 α = 90 b = 61.788 β = 90 c = 82.821 γ = 120
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 MARRESEARCH 2001-08-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 0.802 EMBL/DESY, HAMBURG X13
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 2.15 40 98.9 0.06 19.76 5.62 9695 9695 33.5
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) 2.15 2.23 99.9 0.323 952
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1IZH 2.15 53.45 9229 9229 464 99.23 0.19202 0.19202 0.18942 0.24797 RANDOM 38.732
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] 0.4 0.2 0.4 -0.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 4.725 r_scangle_it 3.074 r_mcangle_it 3.019 r_angle_refined_deg 2.279 r_scbond_it 1.867 r_mcbond_it 1.855 r_angle_other_deg 0.904 r_symmetry_hbond_refined 0.808 r_nbd_other 0.272 r_nbd_refined 0.209
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 4.725 r_scangle_it 3.074 r_mcangle_it 3.019 r_angle_refined_deg 2.279 r_scbond_it 1.867 r_mcbond_it 1.855 r_angle_other_deg 0.904 r_symmetry_hbond_refined 0.808 r_nbd_other 0.272 r_nbd_refined 0.209 r_symmetry_vdw_other 0.208 r_xyhbond_nbd_refined 0.19 r_chiral_restr 0.126 r_nbtor_other 0.105 r_symmetry_vdw_refined 0.083 r_bond_refined_d 0.023 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1476 Nucleic Acid Atoms Solvent Atoms 41 Heterogen Atoms 52
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement