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Structure of the A_mallard_Sweden_51_2002 H10 Avian Haemmaglutinin in complex with avian receptor analog Su-3SLN
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4CVY PDB ENTRY 4CVY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 18% PEG 2000MME AND 0.1 M BICINE PH 9.0
Crystal Properties Matthews coefficient Solvent content 3.56 65.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.113 α = 90 b = 216.085 β = 105.23 c = 81.486 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PILATUS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 Diamond I04
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 3.2 48.93 98.9 0.17 7.2 3.5 37572 2
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 3.2 3.37 99.5 0.95 1.4 3.6
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 4CVY 3.2 108.04 35665 1875 98.85 0.26604 0.26415 0.2648 0.30273 0.2999 RANDOM 97.393
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] 0.02 -0.19 -0.47 0.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.007 r_dihedral_angle_3_deg 15.695 r_dihedral_angle_4_deg 11.397 r_dihedral_angle_1_deg 3.871 r_angle_refined_deg 0.85 r_mcangle_it 0.399 r_scbond_it 0.342 r_mcbond_it 0.214 r_chiral_restr 0.051 r_bond_refined_d 0.004
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.007 r_dihedral_angle_3_deg 15.695 r_dihedral_angle_4_deg 11.397 r_dihedral_angle_1_deg 3.871 r_angle_refined_deg 0.85 r_mcangle_it 0.399 r_scbond_it 0.342 r_mcbond_it 0.214 r_chiral_restr 0.051 r_bond_refined_d 0.004 r_gen_planes_refined 0.002 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_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 11406 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 431
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing