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Structure of the s-adenosylhomocysteine riboswitch at 3.0A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop 7 298 2.25 mM Spermine, 9 mM magnesium chloride, 0.9 mM spermidine, 1.8 mM Cobalt(III)hexammine chloride, 0.05 M sodium cacodylate pH 7.0, 5% (v/v) PEG 400, 20 mM iridium (III) hexammine chloride, hanging drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.29 62.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.36 α = 90 b = 105.36 β = 90 c = 107.78 γ = 120
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 2009-06-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.1051 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.775 29.059 99.8 0.123 4.058 5.6 5865 5854
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.775 2.94 99.9 0.01 1.001 0.7 5.7 852
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.792 29.059 5847 665 99.69 0.256 0.252 0.2498 0.292 0.2901 RANDOM 78.29
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] 0.98 0.49 0.98 -1.46
RMS Deviations Key Refinement Restraint Deviation r_angle_refined_deg 0.97 r_scangle_it 0.489 r_scbond_it 0.281 r_mcangle_it 0.071 r_chiral_restr 0.042 r_mcbond_it 0.023 r_bond_refined_d 0.005 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 1080 Solvent Atoms Heterogen Atoms 26
Software Software Software Name Purpose SCALA data scaling PHASER phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction SCALEPACK data scaling