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Sarcin-ricin loop with guanosine monothiophosphate residue.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3S7C PDB ID: 3S7C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 Crystallization set-ups were made by mixing 4 uL of 350 uM RNA solution [1 mM
Na 2 EDTA (pH 8.0) and 10 mM Tris-HCl (pH 8.0)] with 2 uL of a crystallization buffer composed of 3.0 M ammonium sulfate,
10 mM magnesium chloride, 10 mM manganese chloride, and 50 mM potassium 3-(N-morpholino) propanesulfonic acid (MOPS), pH 7.0 at 18 C.
Crystal Properties Matthews coefficient Solvent content 1.96 37.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 29.639 α = 90 b = 29.639 β = 90 c = 76.658 γ = 90
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 MARMOSAIC 300 mm CCD 2018-04-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97857 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.21 50 99.2 0.055 0.062 0.028 11.7 4.6 19854
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 1.21 1.25 95.6 0.538 0.629 0.32 0.764 3.6
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ID: 3S7C 1.21 50 18798 99.2 0.173 0.1661 0.239 0.1716 Random 19.2428
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]
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 581 Solvent Atoms 113 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data scaling SHELX refinement PDB_EXTRACT data extraction HKL-2000 data reduction MOLREP phasing