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Crystal structure of human Fab H5.28 in complex with influenza A H5N1 Vietnam hemagglutinin head domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4XNQ 4XNQ, 4GSD experimental model PDB 4GSD 4XNQ, 4GSD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291.15 8% PEG 8000, 0.5 M Ca(OAC)2, 0.1 M imidazole
Crystal Properties Matthews coefficient Solvent content 3.71 66.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 135.48 α = 90 b = 187.225 β = 90 c = 342.366 γ = 90
Symmetry Space Group P 2 21 21
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 RAYONIX MX-300 2017-06-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.9787 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 4 49.46 99.9 0.21 8.2 7.6 74362
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 4 4.22 0.625
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4XNQ, 4GSD 4 49.46 1.34 74234 3660 99.9 0.283 0.281 0.2836 0.326 0.3265
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 f_dihedral_angle_d 5.507 f_angle_d 0.543 f_chiral_restr 0.047 f_plane_restr 0.003 f_bond_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 31337 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 760
Software Software Software Name Purpose PHENIX refinement XDS data reduction SCALA data scaling PHASER phasing