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Structural characterization of a GII.4 2004 norovirus variant (TCH05)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3SLD PDB ENTRY 3SLD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 295.15 0.2M Sodium citrate, 0.1M HEPES and 20% Isoproponol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295.15K
Crystal Properties Matthews coefficient Solvent content 3.77 67.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 243.91 α = 90 b = 339.12 β = 90 c = 125.14 γ = 90
Symmetry Space Group C 2 2 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 IMAGE PLATE RIGAKU RAXIS HTC 2009-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 1.54
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 3.22 27.566 94.2 0.171 7.8 3.9 82797 79184 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 3.22 3.39 93.7 0.361 3.9 4.2 11398
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 PDB ENTRY 3SLD 3.22 27.566 1.34 79174 79168 3953 94.28 0.203 0.2008 0.1989 0.2447 0.2384 RANDOM
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] -21.6844 -23.9384 -20.7693
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.275 f_angle_d 1.318 f_chiral_restr 0.093 f_bond_d 0.011 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 23592 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose CrystalClear data collection PHASER phasing PHENIX refinement HKL-2000 data reduction HKL-2000 data scaling