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CRYSTAL STRUCTURE OF THE INTACT HUMAN IGG B12 WITH BROAD AND POTENT ACTIVITY AGAINST PRIMARY HIV-1 ISOLATES: A TEMPLATE FOR HIV VACCINE DESIGN
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CBV PDB ENTRY 1CBV human Fc coordinates (unpublished)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 295.5 NH4SO4, cacodylate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 295.5K
Crystal Properties Matthews coefficient Solvent content 4.11 69.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 271.32 α = 90 b = 271.32 β = 90 c = 175.18 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 96 IMAGE PLATE MARRESEARCH 58 cm long, Pt-coated, fused silica, vertical focus 1999-01-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL7-1 SSRL BL7-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.7 29.65 94.4 0.072 17.6 2.9 187712 -2 65.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.75 95.5 0.626 2.4 2.7 3113
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 1CBV
human Fc coordinates (unpublished) 2.7 29.65 61865 6302 91.7 0.229 0.229 0.2333 0.273 0.2758 RANDOM 90.1
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] 1.47 7.87 1.47 -2.94
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26 c_scangle_it 21.03 c_mcangle_it 17.19 c_scbond_it 15.11 c_mcbond_it 11.25 c_angle_deg 1.3 c_improper_angle_d 0.89 c_bond_d 0.007 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26 c_scangle_it 21.03 c_mcangle_it 17.19 c_scbond_it 15.11 c_mcbond_it 11.25 c_angle_deg 1.3 c_improper_angle_d 0.89 c_bond_d 0.007 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10355 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms 221
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing CNS refinement