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Crystal structure of influenza B virus hemagglutinin in complex with LSTa receptor analog
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Unliganded influenza B virus hemagglutinin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 291 100 mM Pipes, 2.5 M ammonium sulfate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.38 63.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.328 α = 90 b = 98.328 β = 90 c = 135.988 γ = 120
Symmetry Space Group P 3 2 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 CCD ADSC QUANTUM 315 2005-11-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 0.9 APS 14-BM-C
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 2.7 13 89.9 0.047 16.6 21280 19145 3 3
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 2.7 2.8 87.6 0.291 2.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT Unliganded influenza B virus hemagglutinin 2.8 10 16905 15373 1716 90.94 0.28175 0.27984 0.2987 RANDOM 47.336
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] 4.19 2.09 4.19 -6.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.959 r_dihedral_angle_3_deg 19.6 r_dihedral_angle_4_deg 17.823 r_dihedral_angle_1_deg 7.447 r_scangle_it 3.191 r_scbond_it 1.956 r_mcangle_it 1.66 r_angle_refined_deg 1.458 r_mcbond_it 1.345 r_angle_other_deg 0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.959 r_dihedral_angle_3_deg 19.6 r_dihedral_angle_4_deg 17.823 r_dihedral_angle_1_deg 7.447 r_scangle_it 3.191 r_scbond_it 1.956 r_mcangle_it 1.66 r_angle_refined_deg 1.458 r_mcbond_it 1.345 r_angle_other_deg 0.96 r_symmetry_vdw_refined 0.283 r_symmetry_hbond_refined 0.272 r_nbd_refined 0.24 r_xyhbond_nbd_refined 0.221 r_nbd_other 0.216 r_symmetry_vdw_other 0.213 r_nbtor_refined 0.183 r_mcbond_other 0.133 r_nbtor_other 0.096 r_chiral_restr 0.074 r_xyhbond_nbd_other 0.054 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3864 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms 222
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling AMoRE phasing