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NT PART CRYSTAL STRUCTURE OF THE RYMV-ENCODED VIRAL RNA SILENCING SUPPRESSOR P1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIQUID DIFFUSION 293 20 mM Tris pH 8, 75 mM NaCl, 1 mM DTT and 300 mM ZnCl2
Crystal Properties Matthews coefficient Solvent content 3.55 64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 195.612 α = 90 b = 195.612 β = 90 c = 195.612 γ = 90
Symmetry Space Group F 41 3 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 PIXEL DECTRIS PILATUS3 6M 2013-02-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.97625 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2 112.94 100 0.055 0.058 0.012 0.999 45 20 22243
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 2.11 100 0.88 6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 SAD THROUGHOUT 2.1 112.94 18395 878 99.97 0.18564 0.18423 0.1958 0.21417 0.2221 RANDOM 44.583
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 r_dihedral_angle_2_deg 35.511 r_dihedral_angle_3_deg 16.691 r_dihedral_angle_4_deg 15.709 r_long_range_B_refined 10.078 r_long_range_B_other 9.89 r_scangle_other 7.108 r_dihedral_angle_1_deg 6.397 r_mcangle_other 4.814 r_mcangle_it 4.812 r_scbond_it 4.599
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.511 r_dihedral_angle_3_deg 16.691 r_dihedral_angle_4_deg 15.709 r_long_range_B_refined 10.078 r_long_range_B_other 9.89 r_scangle_other 7.108 r_dihedral_angle_1_deg 6.397 r_mcangle_other 4.814 r_mcangle_it 4.812 r_scbond_it 4.599 r_scbond_other 4.599 r_mcbond_it 3.487 r_mcbond_other 3.466 r_angle_refined_deg 1.709 r_angle_other_deg 0.786 r_chiral_restr 0.097 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1545 Nucleic Acid Atoms Solvent Atoms 135 Heterogen Atoms 3
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction SCALA data scaling HKL2Map phasing