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Crystal structure of a tetrameric DNA fold-back quadruplex
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.4 295 100 mM magnesium chloride, 6 mM hexamminecobalt(III) chloride, 30 mM sodium cacodylate, equilibrated against 20% MPD
Crystal Properties Matthews coefficient Solvent content 1.93 36.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 25.96 α = 90 b = 46.96 β = 101.12 c = 35.963 γ = 90
Symmetry Space Group I 1 2 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 MARMOSAIC 225 mm CCD 2016-10-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 0.919 APS 22-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.05 23.48 99.85 0.07 0.043 9.2 3.5 19770
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.05 1.09 0.228 0.16
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 MOLECULAR REPLACEMENT THROUGHOUT 1.05 23.48 18965 980 99.89 0.10836 0.10689 0.1133 0.13722 0.1369 RANDOM 10.177
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] -0.41 -0.55 0.75 -0.11
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 32.769 r_sphericity_bonded 12.593 r_rigid_bond_restr 7.055 r_long_range_B_refined 3.922 r_long_range_B_other 2.898 r_scangle_other 2.497 r_angle_refined_deg 2.405 r_scbond_other 1.932 r_scbond_it 1.93 r_angle_other_deg 1.894
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 32.769 r_sphericity_bonded 12.593 r_rigid_bond_restr 7.055 r_long_range_B_refined 3.922 r_long_range_B_other 2.898 r_scangle_other 2.497 r_angle_refined_deg 2.405 r_scbond_other 1.932 r_scbond_it 1.93 r_angle_other_deg 1.894 r_chiral_restr 0.11 r_gen_planes_refined 0.036 r_bond_refined_d 0.019 r_gen_planes_other 0.015 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_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 370 Solvent Atoms 123 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling PHENIX phasing