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Crystal structure of mouse hepatitis virus strain DVIM Hemagglutinin-Esterase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other MHV-S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 298 0.1M Tris-HCl pH 8.0, 0.05M NaF, 16% w/v PEG3350, 10% v/v glycerol
Crystal Properties Matthews coefficient Solvent content 2.79 56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.523 α = 90 b = 88.819 β = 90 c = 122.163 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 77 CCD ADSC QUANTUM 315 2005-07-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.9999 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 44.41 99.2 0.096 12.5 9.24 65139 42.5
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 2.03 90.9 1.184 2.3 7
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 MHV-S 2 39.73 60663 3263 96.63 0.20627 0.20518 0.2147 0.22595 0.2335 RANDOM 51.651
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] -1.11 5.7 -4.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.505 r_dihedral_angle_4_deg 15.406 r_dihedral_angle_3_deg 13.766 r_dihedral_angle_1_deg 6.763 r_long_range_B_refined 6.134 r_long_range_B_other 6.114 r_scangle_other 4.112 r_scbond_it 2.779 r_scbond_other 2.778 r_mcangle_it 2.615
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.505 r_dihedral_angle_4_deg 15.406 r_dihedral_angle_3_deg 13.766 r_dihedral_angle_1_deg 6.763 r_long_range_B_refined 6.134 r_long_range_B_other 6.114 r_scangle_other 4.112 r_scbond_it 2.779 r_scbond_other 2.778 r_mcangle_it 2.615 r_mcangle_other 2.615 r_mcbond_it 1.817 r_mcbond_other 1.815 r_angle_refined_deg 1.468 r_angle_other_deg 0.895 r_chiral_restr 0.087 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.003 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 5708 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 463
Software Software Software Name Purpose REFMAC refinement EVAL15 data reduction EVAL15 data scaling PHASER phasing