☰ Navigation Tabs
Crystal Structure of the Ring Nuclease 0811 mutant-S12G/K169G from Sulfolobus islandicus (Sis0811)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7PQ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 20% PEG 3350, 0.1M Bis-Tris propane pH 7.5, 0.2M KSCN
Crystal Properties Matthews coefficient Solvent content 2.44 49.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.93 α = 90 b = 104.97 β = 102.89 c = 78.306 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 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 0.9779 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 2.04 76.38 97.6 0.99 18.5 7.1 38798
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 2.04 2.07 0.839
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT FREE R-VALUE 7PQ2 2.04 43.932 38244 1913 99.096 0.196 0.1942 0.1996 0.2379 0.2399 53.097
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] 0.007 -0.514 0.614 -0.349
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.476 r_dihedral_angle_4_deg 22.626 r_dihedral_angle_3_deg 17.624 r_lrange_it 8.777 r_lrange_other 8.777 r_dihedral_angle_1_deg 7.326 r_scangle_it 6.2 r_scangle_other 6.199 r_mcangle_it 5.123 r_mcangle_other 5.122
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.476 r_dihedral_angle_4_deg 22.626 r_dihedral_angle_3_deg 17.624 r_lrange_it 8.777 r_lrange_other 8.777 r_dihedral_angle_1_deg 7.326 r_scangle_it 6.2 r_scangle_other 6.199 r_mcangle_it 5.123 r_mcangle_other 5.122 r_scbond_it 3.962 r_scbond_other 3.961 r_mcbond_it 3.397 r_mcbond_other 3.397 r_angle_refined_deg 1.86 r_angle_other_deg 1.431 r_nbd_refined 0.226 r_symmetry_nbd_refined 0.224 r_nbd_other 0.221 r_symmetry_nbd_other 0.186 r_xyhbond_nbd_refined 0.186 r_symmetry_xyhbond_nbd_refined 0.181 r_nbtor_refined 0.176 r_ncsr_local_group_1 0.157 r_symmetry_xyhbond_nbd_other 0.104 r_chiral_restr 0.092 r_symmetry_nbtor_other 0.083 r_bond_refined_d 0.014 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4398 Nucleic Acid Atoms Solvent Atoms 77 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing