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Allosteric Modulation of DNA by Small Molecules
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277.15 21% 2-methyl-2,4-pentanediol (MPD), 35 mM calcium acetate, 10 mM Tris pH 7.5 equilibrated in sitting drops against a reservoir of 35% MPD at 4 C. , VAPOR DIFFUSION, SITTING DROP, temperature 277.15K
Crystal Properties Matthews coefficient Solvent content 2.32 47.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 22.5 α = 66.53 b = 25.14 β = 79.28 c = 29.09 γ = 79.57
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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.97 SSRL BL12-2
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 1.175 26.472 0.124 12.5 4 19011
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) 1.175 1.205 90.16 0.154 8.9 4
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 AB INITIO PHASING THROUGHOUT 1.18 26.47 16139 1835 94.55 0.103 0.09902 0.1034 0.13764 0.1392 RANDOM 5.679
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] 0.03 -0.05 0.04 -0.01
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 12.406 r_sphericity_bonded 5.225 r_scangle_it 2.604 r_angle_refined_deg 2.565 r_scbond_it 2.163 r_mcangle_it 2.02 r_rigid_bond_restr 1.725 r_mcbond_it 1.668 r_angle_other_deg 1.481 r_mcbond_other 1.285
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 12.406 r_sphericity_bonded 5.225 r_scangle_it 2.604 r_angle_refined_deg 2.565 r_scbond_it 2.163 r_mcangle_it 2.02 r_rigid_bond_restr 1.725 r_mcbond_it 1.668 r_angle_other_deg 1.481 r_mcbond_other 1.285 r_xyhbond_nbd_refined 0.376 r_symmetry_hbond_refined 0.364 r_nbd_other 0.272 r_nbd_refined 0.238 r_nbtor_refined 0.238 r_symmetry_vdw_other 0.15 r_symmetry_vdw_refined 0.141 r_chiral_restr 0.121 r_nbtor_other 0.089 r_metal_ion_refined 0.082 r_symmetry_metal_ion_refined 0.082 r_gen_planes_refined 0.037 r_bond_refined_d 0.026 r_gen_planes_other 0.02 r_bond_other_d 0.004 r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 441 Solvent Atoms 262 Heterogen Atoms 92
Software Software Software Name Purpose SHELX model building REFMAC refinement MOSFLM data reduction SCALA data scaling SHELX phasing