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Crystal structure of hemagglutinin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other initial model determined by SAD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 vapour diffusion, hanging drop 6.5 293 15% PEG3350, 150mM NaI, pH 6.5, vapour diffusion, hanging drop, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.5 50.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.929 α = 90 b = 77.98 β = 90 c = 86.109 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS VII mirror 2006-09-08 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT 1.502
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.82 50 99.8 0.03 49.4 2.5 40006 21.97
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.82 1.89 100 0.161 11 2.3
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 initial model determined by SAD 1.82 30.37 39795 1999 99.62 0.156 0.154 0.1536 0.194 0.1929 RANDOM 23.215
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] 0.23 1 -1.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.714 r_dihedral_angle_4_deg 23.196 r_dihedral_angle_3_deg 11.938 r_dihedral_angle_1_deg 6.234 r_scangle_it 2.632 r_scbond_it 1.807 r_angle_refined_deg 1.244 r_mcangle_it 1.078 r_mcbond_it 0.652 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.714 r_dihedral_angle_4_deg 23.196 r_dihedral_angle_3_deg 11.938 r_dihedral_angle_1_deg 6.234 r_scangle_it 2.632 r_scbond_it 1.807 r_angle_refined_deg 1.244 r_mcangle_it 1.078 r_mcbond_it 0.652 r_nbtor_refined 0.3 r_symmetry_vdw_refined 0.195 r_nbd_refined 0.184 r_symmetry_hbond_refined 0.151 r_xyhbond_nbd_refined 0.135 r_chiral_restr 0.09 r_bond_refined_d 0.013 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3052 Nucleic Acid Atoms Solvent Atoms 858 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing