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Circular permutant of ribosomal protein S6, adding 6aa to C terminal of P68-69
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RIS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 1.0 M Succinic acid
0.1 M HEPES pH 7.0
1% w/v PEG 2000 MME
Crystal Properties Matthews coefficient Solvent content 1.75 29.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.95 α = 90 b = 34.95 β = 90 c = 134.03 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 PIXEL DECTRIS EIGER X 16M 2018-03-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX IV BEAMLINE BioMAX 0.9801 MAX IV BioMAX
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 1.49 134.03 100 0.088 0.09 0.019 0.999 15.5 21.8 14490
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.49 1.52 100 1.649 1.69 0.362 0.798 21.4
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1Ris 1.49 33.82 13672 714 99.94 0.1749 0.1721 0.1727 0.226 0.2289 RANDOM 36.146
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] 0.87 0.87 -1.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.344 r_sphericity_free 34.251 r_dihedral_angle_4_deg 21.533 r_dihedral_angle_3_deg 17.162 r_sphericity_bonded 16.025 r_dihedral_angle_1_deg 5.852 r_rigid_bond_restr 5.39 r_angle_refined_deg 2.452 r_angle_other_deg 1.258 r_chiral_restr 0.137
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.344 r_sphericity_free 34.251 r_dihedral_angle_4_deg 21.533 r_dihedral_angle_3_deg 17.162 r_sphericity_bonded 16.025 r_dihedral_angle_1_deg 5.852 r_rigid_bond_restr 5.39 r_angle_refined_deg 2.452 r_angle_other_deg 1.258 r_chiral_restr 0.137 r_bond_refined_d 0.026 r_gen_planes_refined 0.012 r_bond_other_d 0.003 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 825 Nucleic Acid Atoms Solvent Atoms 49 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction MOLREP phasing