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Structure of Oceanobacillus iheyensis group II intron in a ligand-free state in the presence of K+ and Ba2+
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IGI PDB ENTRY 3IGI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 303 100 mM potassium acetate, 100 mM potassium chloride, 150 mM barium chloride, 50 mM HEPES sodium, pH 7.0, 6% PEG8000, VAPOR DIFFUSION, HANGING DROP, temperature 303K
Crystal Properties Matthews coefficient Solvent content 3.82 67.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.727 α = 90 b = 96.548 β = 90 c = 227.673 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 2011-07-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 1.4850 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 3.99 113.837 98.3 0.069 9.4 3.3 16781
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 3.99 4.21 98.2 0.787 1.5 3.2
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 3IGI 3.995 47.908 15708 794 91.2 0.2992 0.2969 0.2982 0.3455 0.3446
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] 72.9618 -29.2307 -43.7311
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 19.277 f_angle_d 1.3 f_chiral_restr 0.058 f_bond_d 0.008 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 8343 Solvent Atoms 29 Heterogen Atoms 89
Software Software Software Name Purpose PHASER phasing PHENIX refinement ADSC data collection XDS data reduction XSCALE data scaling