☰ Navigation Tabs
Structure of the Arabidopsis thaliana thiamine pyrophosphate riboswitch with its regulatory ligand
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 10% 1,6-HEXANEDIOL 50MM SODIUM CACODYLATE PH7.0 10MM MGSO4
Crystal Properties Matthews coefficient Solvent content 2.57 51.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.85 α = 90 b = 98.67 β = 104.8 c = 54.55 γ = 90
Symmetry Space Group P 1 21 1
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 MARRESEARCH M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.9 15 96 0.235 0.175 7.6 3.7 8918 1
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) 1 2.9 3 74 0.97 0.72 1.6 2.7
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 MAD THROUGHOUT 2.9 15 8918 1270 96 0.191 0.183 0.1944 0.25 0.2519 RANDOM 50.6
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] 1.62 0.88 -0.12 -1.05
RMS Deviations Key Refinement Restraint Deviation r_angle_refined_deg 2.218 r_scangle_it 2.017 r_angle_other_deg 1.426 r_scbond_it 1.195 r_symmetry_vdw_other 0.392 r_nbtor_refined 0.252 r_nbd_other 0.247 r_xyhbond_nbd_refined 0.208 r_symmetry_vdw_refined 0.207 r_nbd_refined 0.178
RMS Deviations Key Refinement Restraint Deviation r_angle_refined_deg 2.218 r_scangle_it 2.017 r_angle_other_deg 1.426 r_scbond_it 1.195 r_symmetry_vdw_other 0.392 r_nbtor_refined 0.252 r_nbd_other 0.247 r_xyhbond_nbd_refined 0.208 r_symmetry_vdw_refined 0.207 r_nbd_refined 0.178 r_symmetry_hbond_refined 0.17 r_nbtor_other 0.095 r_chiral_restr 0.082 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.003 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_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other 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 3310 Solvent Atoms Heterogen Atoms 74
Software Software Software Name Purpose XDS data reduction XDS data scaling SHELX phasing SHARP phasing REFMAC refinement