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The crystal structure of hemagglutinin from A/green-winged teal/Texas/Y171/2006 influenza virus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3M5G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6.5 293 0.1M MES pH 6.5 and 30% (v/v) PEG 300
Crystal Properties Matthews coefficient Solvent content 3.22 61.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.917 α = 90 b = 144.629 β = 90 c = 209.662 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 CCD MARMOSAIC 325 mm CCD 2010-11-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.8 50 98.8 12.2 4.6 54072
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 3M5G 2.8 50 52097 1975 98.6 0.225 0.224 0.2246 0.258 0.2576 RANDOM 59.48
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] -2.36 4.1 -1.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.415 r_dihedral_angle_4_deg 19.368 r_dihedral_angle_3_deg 18.733 r_long_range_B_refined 13.474 r_long_range_B_other 13.472 r_scangle_other 9.312 r_dihedral_angle_1_deg 7.038 r_mcangle_it 6.687 r_mcangle_other 6.686 r_scbond_it 6.147
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.415 r_dihedral_angle_4_deg 19.368 r_dihedral_angle_3_deg 18.733 r_long_range_B_refined 13.474 r_long_range_B_other 13.472 r_scangle_other 9.312 r_dihedral_angle_1_deg 7.038 r_mcangle_it 6.687 r_mcangle_other 6.686 r_scbond_it 6.147 r_scbond_other 6.146 r_mcbond_it 4.461 r_mcbond_other 4.461 r_angle_refined_deg 1.635 r_angle_other_deg 1.201 r_chiral_restr 0.091 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.005 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11466 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 168
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing