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Crystal structure of the haemagglutinin from a transmissible H10N7 seal influenza virus isolated in Netherland in complex with human receptor analogue 6'-SLN
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 293.15 26%-31% PEG600, 0.1M HEPES pH 7.5
Crystal Properties Matthews coefficient Solvent content 3.12 60.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.46 α = 90 b = 213.11 β = 98.28 c = 76.58 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 EIGER X 16M 2017-10-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
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 1.65 54.73 100 1 8.8 6.7 243953
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 1.65 1.68 100 0.5 1.1 6.5
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 4D00 1.65 54.73 243886 12238 99.93 0.2014 0.2007 0.203 0.215 0.2153 RANDOM 32.452
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] -0.1 0.03 0.02 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.516 r_dihedral_angle_3_deg 11.876 r_dihedral_angle_4_deg 11.123 r_dihedral_angle_1_deg 5.301 r_angle_other_deg 3.842 r_mcangle_it 2.125 r_mcbond_it 1.278 r_mcbond_other 1.273 r_angle_refined_deg 1.054 r_chiral_restr 0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.516 r_dihedral_angle_3_deg 11.876 r_dihedral_angle_4_deg 11.123 r_dihedral_angle_1_deg 5.301 r_angle_other_deg 3.842 r_mcangle_it 2.125 r_mcbond_it 1.278 r_mcbond_other 1.273 r_angle_refined_deg 1.054 r_chiral_restr 0.06 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_gen_planes_other 0.003 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11369 Nucleic Acid Atoms Solvent Atoms 1211 Heterogen Atoms 248
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing