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A novel HIV-1 Nef dimer interface induced by a single octyl-glucoside molecule
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 18%-20% PEG5000 MME, 0.1 M Bis-Tris propane, pH 8.0, 5% glycerol
Crystal Properties Matthews coefficient Solvent content 4.02 69.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.577 α = 90 b = 109.577 β = 90 c = 247.04 γ = 120
Symmetry Space Group P 32 2 1
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 2016-07-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1 APS 22-ID
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) 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 3.2 94.9 100 0.075 0.075 0.079 0.024 20.5 10.8 29203
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.2 3.37 100 0.828 0.828 0.869 0.264 3.2 10.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 3.2 94.9 27655 1494 99.96 0.234 0.2331 0.2331 0.2511 0.2427 RANDOM 120.113
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] -0.59 -0.3 -0.59 1.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.351 r_dihedral_angle_3_deg 19.555 r_dihedral_angle_4_deg 16.271 r_dihedral_angle_1_deg 6.649 r_angle_refined_deg 1.156 r_angle_other_deg 0.894 r_chiral_restr 0.06 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.351 r_dihedral_angle_3_deg 19.555 r_dihedral_angle_4_deg 16.271 r_dihedral_angle_1_deg 6.649 r_angle_refined_deg 1.156 r_angle_other_deg 0.894 r_chiral_restr 0.06 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6183 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 60
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction PHASER phasing