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Crystal Structure of the 30S ribosomal subunit from a KsgA mutant of Thermus thermophilus (HB8)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VQE PDB ENTRY 2VQE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop 6.5 277 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 = 402.089 α = 90 b = 402.089 β = 90 c = 173.254 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 CCD ADSC QUANTUM 315 2010-02-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.979 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 3.69 30 98.2 0.132 10.3 3.2 148472
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) 3.69 3.76 97.3 0.589 1.8 3.1 7228
Refinement Statistics Diffraction ID Structure Solution 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB ENTRY 2VQE 3.69 29.842 140210 7073 92.66 0.1757 0.1728 0.1746 0.2314 0.2278 127.0008
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] -12.5355 -12.5355 25.0709
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 17.604 f_angle_d 0.759 f_chiral_restr 0.073 f_bond_d 0.005 f_plane_restr 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 19126 Nucleic Acid Atoms 32511 Solvent Atoms Heterogen Atoms 138
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHENIX refinement PDB_EXTRACT data extraction HKL-2000 data collection