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Crystal structure of Sulfolobus solfataricus C/D RNP assembled with Nop5, fibrillarin, L7Ae and a split half C/D RNA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 293 1.7M (NH4)2SO4, 50mM Na cacodylate, pH 5.6, vapor diffusion, hanging drop, temperature 293K
Crystal Properties Matthews coefficient Solvent content 5.94 79.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 265.485 α = 90 b = 265.485 β = 90 c = 129.434 γ = 90
Symmetry Space Group P 41 21 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 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.00821 SPring-8 BL41XU
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 4 50 98.5 0.139 17.5 12.3 39544
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 4 4.07 85.5 0.83 1.6 4.6
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 SIRAS THROUGHOUT 4.01 20 37665 1888 96.54 0.286 0.285 0.2671 0.304 0.2798 RANDOM 166.712
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] -2.34 -2.34 4.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.74 r_dihedral_angle_3_deg 17.923 r_dihedral_angle_4_deg 16.382 r_dihedral_angle_1_deg 4.685 r_mcangle_it 1.281 r_scangle_it 1.212 r_angle_refined_deg 1.135 r_scbond_it 0.86 r_mcbond_it 0.695 r_nbtor_refined 0.292
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.74 r_dihedral_angle_3_deg 17.923 r_dihedral_angle_4_deg 16.382 r_dihedral_angle_1_deg 4.685 r_mcangle_it 1.281 r_scangle_it 1.212 r_angle_refined_deg 1.135 r_scbond_it 0.86 r_mcbond_it 0.695 r_nbtor_refined 0.292 r_symmetry_hbond_refined 0.237 r_symmetry_vdw_refined 0.201 r_nbd_refined 0.173 r_xyhbond_nbd_refined 0.112 r_chiral_restr 0.097 r_bond_refined_d 0.006 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11276 Nucleic Acid Atoms 1400 Solvent Atoms Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling SHARP phasing