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A general strategy for the generation of human antibody variable domains with increased aggregation resistance
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3QOS PDB ENTRY 3QOS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 counter diffusion in Crystal Harp capillary 5.5 293 20% PEG 3350, 100mM Citrate, pH 5.5, counter diffusion in Crystal Harp capillary, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.55 65.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.61 α = 90 b = 143.12 β = 90 c = 145.61 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 100 CCD ADSC QUANTUM 315r 2011-09-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.95369 Australian Synchrotron MX2
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 2.8 145.61 100 0.151 10.5 7.2 43312 43312 2 2
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 2.8 2.95 100 0.777 0.777 0.836 0.306 1 7.4 6259
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3QOS 2.8 145.61 43273 43273 2180 99.94 0.2112 0.2112 0.2093 0.2102 0.247 0.243 RANDOM 40.975
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] -2.96 2.5 0.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.254 r_dihedral_angle_4_deg 20.768 r_dihedral_angle_3_deg 13.938 r_dihedral_angle_1_deg 10.322 r_angle_refined_deg 1.452 r_angle_other_deg 0.929 r_chiral_restr 0.094 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.254 r_dihedral_angle_4_deg 20.768 r_dihedral_angle_3_deg 13.938 r_dihedral_angle_1_deg 10.322 r_angle_refined_deg 1.452 r_angle_other_deg 0.929 r_chiral_restr 0.094 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8129 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 88
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection