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Crystal structure of THF riboswitch, bound with THF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293.15 0.1 M Na-HEPES, pH 7.5,
4.2 M Na-formate, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K
Crystal Properties Matthews coefficient Solvent content 3.48 64.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 126.173 α = 90 b = 126.173 β = 90 c = 149.222 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 2011-01-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 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 2.9 50 99.6 0.104 8.5 10173 10132 3
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 2.9 3 100 0.61 4.7 8.4 1008
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.9 20 9809 9625 488 98.12 0.18978 0.18978 0.18786 0.2323 0.2173 RANDOM 93.146
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] 3.34 1.67 3.34 -5
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 3.096 r_scbond_it 2.684 r_angle_refined_deg 1.165 r_nbtor_refined 0.293 r_nbd_refined 0.212 r_metal_ion_refined 0.212 r_symmetry_vdw_refined 0.194 r_xyhbond_nbd_refined 0.175 r_symmetry_hbond_refined 0.174 r_chiral_restr 0.058
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 3.096 r_scbond_it 2.684 r_angle_refined_deg 1.165 r_nbtor_refined 0.293 r_nbd_refined 0.212 r_metal_ion_refined 0.212 r_symmetry_vdw_refined 0.194 r_xyhbond_nbd_refined 0.175 r_symmetry_hbond_refined 0.174 r_chiral_restr 0.058 r_gen_planes_refined 0.012 r_bond_refined_d 0.006 r_bond_other_d r_angle_other_deg r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_it r_mcbond_other r_mcangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 2176 Solvent Atoms 1 Heterogen Atoms 14
Software Software Software Name Purpose CBASS data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing