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Structure of bovine torovirus Hemagglutinin-Esterase in complex with receptor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3I26 PDB ENTRY 3I26
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 291 0.2M sodium malonate, 0.1M Bis-Tris propane, pH 8.5, 25% (w/v) PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 291.0K
Crystal Properties Matthews coefficient Solvent content 3.05 59.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.63 α = 90 b = 112.89 β = 90 c = 273.03 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 ADSC QUANTUM 4 2007-10-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.9732 ESRF ID23-1
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 50 99.5 0.075 12 3.7 141526 141525 -3.7 20.1
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 2.11 98.6 0.34 3.8 3.7 20262
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 3I26 2 48.92 141522 134416 7106 99.42 0.1802 0.17864 0.1901 0.21004 0.2201 RANDOM 15.257
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] -0.57 -0.89 1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.158 r_dihedral_angle_3_deg 13.209 r_dihedral_angle_4_deg 11.138 r_dihedral_angle_1_deg 7.102 r_scangle_it 2.952 r_scbond_it 1.864 r_angle_refined_deg 1.457 r_mcangle_it 1.098 r_angle_other_deg 0.966 r_mcbond_it 0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.158 r_dihedral_angle_3_deg 13.209 r_dihedral_angle_4_deg 11.138 r_dihedral_angle_1_deg 7.102 r_scangle_it 2.952 r_scbond_it 1.864 r_angle_refined_deg 1.457 r_mcangle_it 1.098 r_angle_other_deg 0.966 r_mcbond_it 0.62 r_mcbond_other 0.161 r_chiral_restr 0.145 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11419 Nucleic Acid Atoms Solvent Atoms 1012 Heterogen Atoms 435
Software Software Software Name Purpose DNA data collection PHASER phasing REFMAC refinement XDS data reduction SCALA data scaling