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Crystal structure of the haemagglutinin mutant (Gln226Leu, Del228) 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 10% PEG6000, 0.1M bicine pH9.0
Crystal Properties Matthews coefficient Solvent content 3.7 66.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.872 α = 90 b = 211.996 β = 105.03 c = 82.479 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-F 2015-11-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9795 Diamond I02
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 2.4 67.48 98.6 0.996 8.1 3 88879
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 2.4 2.44 0.454 1
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 2.4 64.3 88837 4408 98.56 0.2503 0.2492 0.2419 0.2712 0.2638 RANDOM 79.0629
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] 0.24 0.04 0.2 -0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.005 r_dihedral_angle_3_deg 13.489 r_dihedral_angle_4_deg 10.751 r_dihedral_angle_1_deg 5.1 r_angle_other_deg 3.839 r_mcangle_it 3.238 r_mcbond_it 1.87 r_mcbond_other 1.869 r_angle_refined_deg 0.99 r_chiral_restr 0.058
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.005 r_dihedral_angle_3_deg 13.489 r_dihedral_angle_4_deg 10.751 r_dihedral_angle_1_deg 5.1 r_angle_other_deg 3.839 r_mcangle_it 3.238 r_mcbond_it 1.87 r_mcbond_other 1.869 r_angle_refined_deg 0.99 r_chiral_restr 0.058 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 11276 Nucleic Acid Atoms Solvent Atoms 154 Heterogen Atoms 146
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction Aimless data reduction xia2 data scaling PHASER phasing