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Structural variations and solvent structure of UGGGGU quadruplexes stabilized by Sr2+ ions
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 MgCl2 20mM, SrCl2 80mM, CaCl2 40mM, SPM 4Cl 12mM, Sodium cacodylate 20mM, 35% MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.6 23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.645 α = 90 b = 36.645 β = 90 c = 37.078 γ = 90
Symmetry Space Group P 4 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 PIXEL PSI PILATUS 6M M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.979 SSRL BL11-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 0.88 37.08 93.5 19031 19031
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 0.88 0.93 58.8
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 0.88 37.08 18036 975 93.31 0.09299 0.09272 0.1017 0.09811 0.1042 RANDOM 12.663
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] -0.01 -0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 22.921 r_sphericity_bonded 9.673 r_rigid_bond_restr 5.433 r_long_range_B_refined 1.939 r_angle_other_deg 1.882 r_angle_refined_deg 1.744 r_long_range_B_other 1.713 r_scangle_other 1.496 r_scbond_it 1.079 r_scbond_other 1.073
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 22.921 r_sphericity_bonded 9.673 r_rigid_bond_restr 5.433 r_long_range_B_refined 1.939 r_angle_other_deg 1.882 r_angle_refined_deg 1.744 r_long_range_B_other 1.713 r_scangle_other 1.496 r_scbond_it 1.079 r_scbond_other 1.073 r_chiral_restr 0.106 r_gen_planes_refined 0.052 r_bond_refined_d 0.013 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 258 Solvent Atoms 54 Heterogen Atoms 10
Software Software Software Name Purpose MOSFLM data reduction PHASER phasing REFMAC refinement SCALA data scaling