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The structure of XendoU: a splicing independent snoRNA processing endoribonuclease
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 1.6M AMMONIUM SULPHATE, 0.2M PHOSPHATE BUFFER PH5.5, pH 5.50
Crystal Properties Matthews coefficient Solvent content 2.4 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 164.451 α = 90 b = 53.204 β = 121.86 c = 133.466 γ = 90
Symmetry Space Group C 1 2 1
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 CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 20 96 0.17 8.8 4.3 64530 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 2.2 2.25 92.8 0.39 4 4.2
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 MIR THROUGHOUT 2.2 20 46190 2463 96.9 0.274 0.274 0.2694 0.277 0.332 RANDOM 39.14
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] -0.06 0.96 0.67 0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.496 r_dihedral_angle_3_deg 21.004 r_dihedral_angle_4_deg 20.711 r_dihedral_angle_1_deg 14.708 r_mcangle_it 4.176 r_scangle_it 3.331 r_mcbond_it 2.516 r_scbond_it 2.372 r_angle_refined_deg 1.897 r_nbtor_refined 0.317
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.496 r_dihedral_angle_3_deg 21.004 r_dihedral_angle_4_deg 20.711 r_dihedral_angle_1_deg 14.708 r_mcangle_it 4.176 r_scangle_it 3.331 r_mcbond_it 2.516 r_scbond_it 2.372 r_angle_refined_deg 1.897 r_nbtor_refined 0.317 r_nbd_refined 0.27 r_symmetry_vdw_refined 0.242 r_xyhbond_nbd_refined 0.208 r_symmetry_hbond_refined 0.166 r_chiral_restr 0.147 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6746 Nucleic Acid Atoms Solvent Atoms 438 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SOLVE/RESOLVE phasing