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Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with codon, crystallographically disordered near-cognate transfer RNA anticodon stem-loop mismatched at the second codon position, and streptomycin bound
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 HANGING DROP 6.5 277 MPD, pH 6.5, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.47 72.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 402.49 α = 90 b = 402.49 β = 90 c = 174.79 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 PILATUS 6M 2011-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25
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 3.75 50 99.9 0.136 15.52 146049 146049 -3 -3 121.622
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 3.75 3.85 100 0.014 1.99
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 FOURIER SYNTHESIS 3.75 48.909 1.99 146005 146005 7300 99.94 0.1507 0.1481 0.1459 0.2008 0.1974 FROM PDB ENTRY 2VQE 146.2181
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] -3.9266 -3.9266 13.4395
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 20.411 f_angle_d 1.627 f_chiral_restr 0.086 f_bond_d 0.014 f_plane_restr 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 19127 Nucleic Acid Atoms 33073 Solvent Atoms 892 Heterogen Atoms 386
Software Software Software Name Purpose XSCALE data scaling PHENIX refinement PDB_EXTRACT data extraction HKL-2000 data collection XDS data reduction PHENIX phasing