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Crystal Structure of Frameshift Suppressor tRNA SufA6 bound to Codon CCC-G on the Ribosome
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3I9D PDB ENTRY 3I9D AND 3I93 experimental model PDB 3I93 PDB ENTRY 3I9D AND 3I93
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 293 4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.31 62.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 209.5456 α = 90 b = 449.211 β = 90 c = 619.2374 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 CCD ADSC QUANTUM 315 2010-11-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.97 APS 24-ID-C
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 3.26 34.82 98.1 0.195 6.57 881904 881904 -3 -3 74.1738879887
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 3.26 3.34 94.7 0.012 1.05
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION PDB ENTRY 3I9D AND 3I93 3.44000111574 34.8114649848 0.855741124575 755367 34668 98.6907294078 0.245027068825 0.24314615884 0.243 0.284522132625 0.2841 8.82233247901
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 18.1339458384 f_angle_d 1.21795491551 f_chiral_restr 0.0679249617986 f_plane_restr 0.0079896293099 f_bond_d 0.0065627471557
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 92228 Nucleic Acid Atoms 198206 Solvent Atoms Heterogen Atoms 689
Software Software Software Name Purpose XSCALE data scaling PHENIX refinement XDS data scaling XDS data reduction PHENIX phasing