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Joint neutron and X-ray structure of per-deuterated HIV-1 protease in complex with clinical inhibitor amprenavir
NEUTRON DIFFRACTION - X-RAY DIFFRACTION
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 290 0.1M MES, pH=6; 0.8M NaCl, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.79 55.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.186 α = 90 b = 87.431 β = 90 c = 46.405 γ = 90
Symmetry Space Group P 21 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 293 IMAGE PLATE RIGAKU RAXIS IV++ RIGAKU OSMIC VariMax 2012-11-01 M SINGLE WAVELENGTH 2 1 neutron 293 IMAGE PLATE MAATEL CYLINDRICAL SET OF COLLIMATORS 2012-10-02 L LAUE
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54 IN-HOUSE 2 NUCLEAR REACTOR OTHER 2.8-4.0 LADI-III
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) R Split (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 2 59.11 50.9 0.128 7.5 3.2 12800 2 2 40 94.9 0.074 36.3 7.1 16006
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) R Split (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.11 0.269 4.1 3.1 2 2 2.07 0.494 4.9 6.6
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2.01 19.77 16681 14719 724 88.2 0.194 0.1807 0.203 0.1931 random 30.53 NEUTRON DIFFRACTION MOLECULAR REPLACEMENT 2 20 3 12800 565 77.3 0.244 0.244 0.261 random 30.53
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]
RMS Deviations Key Refinement Restraint Deviation x_torsion_deg 17.2 x_torsion_deg 17.2 x_angle_deg 1 x_angle_deg 1 x_torsion_impr_deg 0.88 x_torsion_impr_deg 0.88 x_bond_d 0.008 x_bond_d 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1512 Nucleic Acid Atoms Solvent Atoms 131 Heterogen Atoms 36
Software Software Software Name Purpose nCNS refinement MAATEL data collection LAUEGEN data reduction LSCALE data scaling CNS phasing