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H5 (VN1194) Asn186Lys Mutant Haemagglutinin in Complex with Human Receptor Analogue 6'SLN
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4BGW PDB ENTRY 4BGW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.1 M HEPES/MOPS PH 7.0, 0.05 M MGCL2, 28-30% PEG 550 MME, SEEDED WITH CRUSHED WILD-TYPE VN1194 HA CRYSTALS.
Crystal Properties Matthews coefficient Solvent content 3.74 67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.464 α = 90 b = 101.464 β = 90 c = 452.187 γ = 120
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 CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 Diamond I04-1
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 2.48 35.7 100 0.07 2.8 9.4 32430 2.8
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 2.48 2.61 100 0.68 2.8 9.3
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 PDB ENTRY 4BGW 2.48 150.73 30783 1645 99.89 0.20602 0.20416 0.2071 0.24127 0.2404 RANDOM 85.126
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] 2.66 1.33 2.66 -8.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.135 r_dihedral_angle_4_deg 16.811 r_dihedral_angle_3_deg 14.583 r_dihedral_angle_1_deg 5.525 r_scbond_it 2.526 r_mcangle_it 2.363 r_mcbond_it 1.428 r_mcbond_other 1.426 r_angle_refined_deg 1.03 r_angle_other_deg 0.669
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.135 r_dihedral_angle_4_deg 16.811 r_dihedral_angle_3_deg 14.583 r_dihedral_angle_1_deg 5.525 r_scbond_it 2.526 r_mcangle_it 2.363 r_mcbond_it 1.428 r_mcbond_other 1.426 r_angle_refined_deg 1.03 r_angle_other_deg 0.669 r_chiral_restr 0.055 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3860 Nucleic Acid Atoms Solvent Atoms 102 Heterogen Atoms 201
Software Software Software Name Purpose REFMAC refinement xia2 data reduction SCALA data scaling PHASER phasing