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A viral capsid:antibody complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3TG7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 PEG 4000, sodium chloride,
Crystal Properties Matthews coefficient Solvent content 3.38 63.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 156.999 α = 90 b = 156.999 β = 90 c = 144.891 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 IMAGE PLATE RIGAKU RAXIS II 2012-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT 0.987
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.7 135.931 100 0.167 0.176 0.058 11.8 9.4 55555 55555
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 2.7 2.85 100 0.964 0.7 9.1
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 3TG7 2.7 78.5 52764 2821 99.94 0.1673 0.1644 0.1728 0.2229 0.225 RANDOM 68.353
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] -0.02 -0.01 -0.02 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.293 r_dihedral_angle_3_deg 17.451 r_dihedral_angle_4_deg 16.251 r_mcangle_it 8.459 r_dihedral_angle_1_deg 7.89 r_mcbond_it 5.256 r_mcbond_other 5.246 r_angle_refined_deg 1.669 r_angle_other_deg 1.065 r_chiral_restr 0.101
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.293 r_dihedral_angle_3_deg 17.451 r_dihedral_angle_4_deg 16.251 r_mcangle_it 8.459 r_dihedral_angle_1_deg 7.89 r_mcbond_it 5.256 r_mcbond_other 5.246 r_angle_refined_deg 1.669 r_angle_other_deg 1.065 r_chiral_restr 0.101 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10672 Nucleic Acid Atoms Solvent Atoms 483 Heterogen Atoms
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction