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AT-rich DNA dodecamer with extra helical guanine-nickel coordination
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 281.15 Sodium Cacodylate Buffer pH 6.5, MPD 50%, Nickel II, Magnesium II
Crystal Properties Matthews coefficient Solvent content 2.61 52.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.78 α = 90 b = 44.78 β = 90 c = 99.01 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 IMAGE PLATE MAR scanner 345 mm plate 2010-01-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54179
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 2.6 38.78 97 0.106 2.6 5.2 6470 62
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 2.6 2.75 69.5 0.637 4.6
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 THROUGHOUT 2.64 38.78 5988 315 96.26 0.22824 0.22731 0.2449 0.2469 0.2648 RANDOM 44.913
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] 32.09 32.09 -64.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 15.77 r_mcangle_it 2.595 r_long_range_B_refined 1.933 r_long_range_B_other 1.922 r_angle_other_deg 1.635 r_scangle_other 1.283 r_scbond_it 0.972 r_scbond_other 0.906 r_angle_refined_deg 0.847 r_chiral_restr 0.193
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 15.77 r_mcangle_it 2.595 r_long_range_B_refined 1.933 r_long_range_B_other 1.922 r_angle_other_deg 1.635 r_scangle_other 1.283 r_scbond_it 0.972 r_scbond_other 0.906 r_angle_refined_deg 0.847 r_chiral_restr 0.193 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_other r_scangle_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 1362 Solvent Atoms 54 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling AMoRE phasing