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Crystal structure of the haemagglutinin mutant (Gln226Leu, Gly228Ser) from an H10N7 seal influenza virus isolated in Germany in complex with avian receptor analogue 3'-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 298 6% PEG3350, 0.1 M MES pH6.5
Crystal Properties Matthews coefficient Solvent content 3.3 62.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.843 α = 90 b = 215.101 β = 96.78 c = 78.246 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 PILATUS3 6M 2017-07-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9798 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 2.27 73.08 99.9 0.987 5.2 3.3 97730
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 2.27 2.31 99.9 0.436 1.4 3.2
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 2.27 73.08 97545 4821 99.75 0.2466 0.2453 0.2443 0.2727 0.2736 RANDOM 47.0253
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] 0.08 -0.02 0.27 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.921 r_dihedral_angle_3_deg 11.955 r_dihedral_angle_4_deg 10.509 r_dihedral_angle_1_deg 4.959 r_angle_other_deg 3.823 r_mcangle_it 1.608 r_angle_refined_deg 1 r_mcbond_it 0.89 r_mcbond_other 0.89 r_chiral_restr 0.057
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.921 r_dihedral_angle_3_deg 11.955 r_dihedral_angle_4_deg 10.509 r_dihedral_angle_1_deg 4.959 r_angle_other_deg 3.823 r_mcangle_it 1.608 r_angle_refined_deg 1 r_mcbond_it 0.89 r_mcbond_other 0.89 r_chiral_restr 0.057 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 11515 Nucleic Acid Atoms Solvent Atoms 497 Heterogen Atoms 255
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction xia2 data reduction Aimless data scaling PHASER phasing