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Satellite Tobacco Mosaic Virus Refined to 1.4 A Resolution using icosahedral constraints
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A34 PDB entry 1A34
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 296 crystals grown from 15% ammonium sulfate on earth with a reservoir of 15% ammonium sulfate over 14 days., pH 6.50, VAPOR DIFFUSION, SITTING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 2.31 46.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 172.69 α = 90 b = 190.3 β = 90 c = 201.69 γ = 90
Symmetry Space Group I 2 2 2
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 315 2003-10-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 1.06 ALS 8.2.2
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 1.4 48.35 95.4 0.1 11.6 7.23 643001 613720 19.4
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) 1 1.4 1.45 67.3 0.354 2.9 2.17 43070
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) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THOUGHOUT PDB entry 1A34 1.45 48.35 570721 570721 28359 98.5 0.2784 0.2784 0.2776 0.2615 0.2793 0.2645 RANDOM 39.23
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] -2.08 2.396 -0.316
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 88
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 17.992 c_scangle_it 10.12 c_scbond_it 7.79 c_mcangle_it 1.81 c_improper_angle_d 1.401 c_angle_deg 1.28 c_mcbond_it 1.18 c_bond_d 0.0068
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1118 Nucleic Acid Atoms 448 Solvent Atoms 277 Heterogen Atoms 16
Software Software Software Name Purpose ADSC data collection Coot model building CNS refinement d*TREK data reduction d*TREK data scaling CNS phasing