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Crystal Structure of H5 (VN1194) Ser227Asn/Gln196Arg Mutant Haemagglutinin
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 = 100.635 α = 90 b = 100.635 β = 90 c = 448.712 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 I02 Diamond I02
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 2.65 43.37 100 0.1 9.7 8.1 26069 2.1
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 2.65 2.79 100 0.62 2.1 7.9
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 4BGW 2.65 149.57 24721 1327 99.89 0.19555 0.19331 0.2379 0.2412 RANDOM 101.64
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] 2.94 1.47 2.94 -9.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.389 r_dihedral_angle_3_deg 16.159 r_dihedral_angle_4_deg 11.542 r_dihedral_angle_1_deg 5.687 r_mcangle_it 4.091 r_scbond_it 3.307 r_mcbond_it 2.521 r_mcbond_other 2.51 r_angle_refined_deg 1.07 r_angle_other_deg 0.677
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.389 r_dihedral_angle_3_deg 16.159 r_dihedral_angle_4_deg 11.542 r_dihedral_angle_1_deg 5.687 r_mcangle_it 4.091 r_scbond_it 3.307 r_mcbond_it 2.521 r_mcbond_other 2.51 r_angle_refined_deg 1.07 r_angle_other_deg 0.677 r_chiral_restr 0.059 r_bond_refined_d 0.006 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 3863 Nucleic Acid Atoms Solvent Atoms 23 Heterogen Atoms 182
Software Software Software Name Purpose REFMAC refinement xia2 data reduction SCALA data scaling PHASER phasing