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Crystal structure of ASL-SufJ bound to Codon ACC-C on the Ribosome
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3I8F 3I8F, 3I8G, 3I8H, 3I8I experimental model PDB 3I8G 3I8F, 3I8G, 3I8H, 3I8I experimental model PDB 3I8H 3I8F, 3I8G, 3I8H, 3I8I experimental model PDB 3I8I 3I8F, 3I8G, 3I8H, 3I8I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
Crystal Properties Matthews coefficient Solvent content 3.33 63.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 210.464 α = 90 b = 450.7 β = 90 c = 621.065 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 RAYONIX MX300HS 2013-06-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 3.6 50 99.9 0.187 0.208 7.84 5.3 675413 -3 102.48
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.6 3.7 99.8 0.908 1.011 1.93 5.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation 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 MOLECULAR REPLACEMENT FREE R-VALUE 3I8F, 3I8G, 3I8H, 3I8I 3.6 49.847 1.36 674544 30524 99.78 0.2066 0.2049 0.2056 0.2441 0.2436 108.1981
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 17.086 f_angle_d 0.983 f_chiral_restr 0.054 f_bond_d 0.006 f_plane_restr 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 93003 Nucleic Acid Atoms 198130 Solvent Atoms Heterogen Atoms 973
Software Software Software Name Purpose XSCALE data scaling PDB_EXTRACT data extraction PHENIX refinement