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Crystal Structure of the Ring Nuclease 0455 from Sulfolobus islandicus (Sis0455) in complex with its substrate
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 41% PEG 400
0.1M sodium acetate pH 4.5
0.1M Li2SO4
Crystal Properties Matthews coefficient Solvent content 1.78 30.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.975 α = 90 b = 79.531 β = 90 c = 95.74 γ = 90
Symmetry Space Group P 21 21 21
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 EIGER X 16M 2021-02-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.979 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.54 61.24 84.2 0.999 18 24.4 37215
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 1.54 1.65 0.488
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 1.664 47.916 36894 1938 98.859 0.211 0.2086 0.2142 0.2518 0.2482 37.293
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] -0.052 0.222 -0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.105 r_dihedral_angle_4_deg 18.113 r_dihedral_angle_3_deg 15.53 r_dihedral_angle_1_deg 7.385 r_lrange_other 7.338 r_lrange_it 7.337 r_scangle_it 5.775 r_scangle_other 5.774 r_mcangle_it 4.377 r_mcangle_other 4.377
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.105 r_dihedral_angle_4_deg 18.113 r_dihedral_angle_3_deg 15.53 r_dihedral_angle_1_deg 7.385 r_lrange_other 7.338 r_lrange_it 7.337 r_scangle_it 5.775 r_scangle_other 5.774 r_mcangle_it 4.377 r_mcangle_other 4.377 r_scbond_it 3.987 r_scbond_other 3.986 r_mcbond_it 3.179 r_mcbond_other 3.155 r_angle_refined_deg 2.042 r_angle_other_deg 1.448 r_nbd_other 0.29 r_symmetry_nbd_refined 0.253 r_nbd_refined 0.224 r_symmetry_nbd_other 0.188 r_nbtor_refined 0.173 r_xyhbond_nbd_refined 0.148 r_symmetry_xyhbond_nbd_refined 0.132 r_chiral_restr 0.098 r_symmetry_nbtor_other 0.082 r_bond_refined_d 0.014 r_gen_planes_refined 0.012 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2999 Nucleic Acid Atoms 88 Solvent Atoms 36 Heterogen Atoms 9
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling CRANK2 phasing