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Crystal Structure of Potato Leafroll Virus (PLRV) Coat Protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6SCO PDB entry 6SCO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 0.1 M Bis-Tris propane, pH 7.7, 26% PEG3350, 0.1 M sodium bromide
Crystal Properties Matthews coefficient Solvent content 1.92 35.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.863 α = 79.67 b = 67.479 β = 76.219 c = 75.887 γ = 81.673
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER2 X 16M 2018-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.979 APS 24-ID-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.504 72.86 89.13 0.072 0.997 8.6 3.3 177750 20.79
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.504 1.558 0.315
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE PDB entry 6SCO 1.8 72.86 1.15 59987 3090 93.11 0.1698 0.1672 0.1665 0.2175 0.2175 23.88
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 f_dihedral_angle_d 19.3672 f_angle_d 0.8862 f_chiral_restr 0.057 f_bond_d 0.0068 f_plane_restr 0.0052
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6542 Nucleic Acid Atoms Solvent Atoms 688 Heterogen Atoms 1
Software Software Software Name Purpose PHENIX refinement Coot model building PDB_EXTRACT data extraction PHASER phasing XDS data reduction Aimless data scaling