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Crystal Structure of Helicoverpa Armigera Stunt Virus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OHF PDB ENTRY 1OHF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 295 2 ul of 8mg/ml virus solution (50mM NaAce pH 5.0) added to 2 ul of 100mM bicine pH 8.0, 1.0% PEG8000, 150mM CaAce, 350-400mM NaCl. Trapezoid crystals appear in 2 days and grow for 3 weeks, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.54 52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 404.12 α = 119.2 b = 405.57 β = 114.44 c = 406.04 γ = 94.79
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 CCD ADSC QUANTUM 315 M SINGLE WAVELENGTH 2 1 x-ray 298 CCD ADSC QUANTUM 4 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.979 SSRL BL11-1 2 SYNCHROTRON APS BEAMLINE 14-BM-C 0.900 APS 14-BM-C
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 2.5 40 27.3 0.148 6.5 1.2 1807513 1807513 -0.5 35.9
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 2.5 2.59 12.1 0.332 2.1 1.1 80387
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 (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT NOT USED PDB ENTRY 1OHF 2.5 40 1807472 1807472 27.3 0.24 0.24 0.237 0.2404 40.5781
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] 1.921 -0.487 3.506 -2.112 -1.564 0.191
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 3.038 c_mcangle_it 2.491 c_scbond_it 1.901 c_angle_deg 1.619 c_mcbond_it 1.394 c_bond_d 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 17902 Nucleic Acid Atoms Solvent Atoms 1309 Heterogen Atoms 4
Software Software Software Name Purpose SCALEPACK data scaling CNS refinement PDB_EXTRACT data extraction DENZO data reduction GLRF phasing