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X-ray structure of a native calicivirus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other CRYOEM STRUCTURE OF SAN MIGUEL SEA LION VIRUS AT A RESOLUTION OF 19 ANGSTROM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 295 0.8M ammonium sulfate, 1M lithium sulfate, 0.1M trisodium citrate dihydrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 295K, pH 5.60
Crystal Properties Matthews coefficient Solvent content 3.7 66.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 457.553 α = 90 b = 457.553 β = 90 c = 457.553 γ = 90
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 210 MIRRORS 2002-05-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 CHESS F1
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 50 95.8 0.122 6.7 3.2 248269 1 59.4
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) 3.2 3.31 84.7 0.469 2
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT CRYOEM STRUCTURE OF SAN MIGUEL SEA LION VIRUS AT A RESOLUTION OF 19 ANGSTROM 3.2 50 259113 223124 22363 86.1 0.249 0.249 0.2338 0.2603 RANDOM 54.75
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]
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25.445 c_angle_deg 1.414 c_improper_angle_d 0.9747 c_bond_d 0.0107 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25.445 c_angle_deg 1.414 c_improper_angle_d 0.9747 c_bond_d 0.0107 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot c_mcbond_it c_mcangle_it c_scbond_it c_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12747 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose ADSC data collection SCALEPACK data scaling RAVE model building CNS refinement RAVE phasing