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Crystal structure of the haemagglutinin mutant (Gln226Leu, Gly228Ser) from an H10N7 seal influenza virus isolated in Germany
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4D00
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 6% PEG3350, 0.1 M MES pH6.5
Crystal Properties Matthews coefficient Solvent content 3.5 64.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.31 α = 90 b = 213.61 β = 102.29 c = 156.8 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PILATUS 6M 2017-01-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 2.68 72.11 99.9 0.998 8.9 7 124460
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.68 2.75 0.627
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4D00 2.68 72.11 124424 6188 99.91 0.2706 0.269 0.3017 0.2551 RANDOM 91.6135
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] 0.07 -0.43 0.48 -0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.827 r_dihedral_angle_3_deg 16.76 r_dihedral_angle_4_deg 15.38 r_mcangle_it 9.154 r_dihedral_angle_1_deg 6.273 r_mcbond_it 5.882 r_mcbond_other 5.882 r_angle_other_deg 4.21 r_angle_refined_deg 1.818 r_chiral_restr 0.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.827 r_dihedral_angle_3_deg 16.76 r_dihedral_angle_4_deg 15.38 r_mcangle_it 9.154 r_dihedral_angle_1_deg 6.273 r_mcbond_it 5.882 r_mcbond_other 5.882 r_angle_other_deg 4.21 r_angle_refined_deg 1.818 r_chiral_restr 0.089 r_bond_refined_d 0.013 r_gen_planes_other 0.007 r_gen_planes_refined 0.005 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 22886 Nucleic Acid Atoms Solvent Atoms 81 Heterogen Atoms 171
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction xia2 data reduction Aimless data scaling PHASER phasing