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SAM-I riboswitch from T. tencongensis variant A94G bound with SAM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GIS PDB entry 2GIS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop 7 303 pH 7.0, hanging drop, temperature 303K
Crystal Properties Matthews coefficient Solvent content 2.46 50.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.804 α = 90 b = 61.804 β = 90 c = 157.568 γ = 90
Symmetry Space Group P 43 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 IMAGE PLATE RIGAKU RAXIS IV++ 2006-08-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 2.55 20 99.3 0.053 16.4 4.98 18976 18805 2 32.2
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) 2.55 2.65 99.9 0.343 4.1 4.81
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB entry 2GIS 2.55 19.93 18976 18805 1814 98.9 0.249 0.249 0.2464 0.293 0.2889 56.66
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] 11.52 11.52 -23.04
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 16.6 c_improper_angle_d 3.5 c_mcangle_it 2.54 c_scangle_it 2.21 c_scbond_it 1.43 c_angle_deg 1.4 c_mcbond_it 1.25 c_bond_d 0.008 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 16.6 c_improper_angle_d 3.5 c_mcangle_it 2.54 c_scangle_it 2.21 c_scbond_it 1.43 c_angle_deg 1.4 c_mcbond_it 1.25 c_bond_d 0.008 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 2030 Solvent Atoms 48 Heterogen Atoms 36
Software Software Software Name Purpose d*TREK data scaling CNS refinement PDB_EXTRACT data extraction CrystalClear data collection d*TREK data reduction CNS phasing