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Lambda-[Ru(phen)2(dppz-11,12-Me)]2+ bound to a short substituted DNA sequence
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 291 1ul 2mM DNA (single stranded), 1uL 4mM rac-[Ru(phen)2(dppz-11,12-Me)]2+, 6uL of 10% 2-methyl-2,4-pentanediol, 40mM sodium cacodylate, 12mM spermine, 80mM KCl, 20mM BaCl2. Equilibrated against 1ml 2-methyl-2,4-pentanediol, pH 7
Crystal Properties Matthews coefficient Solvent content 4.98 75.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.72 α = 90 b = 67.72 β = 90 c = 35.85 γ = 120
Symmetry Space Group P 64 2 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 DECTRIS PILATUS 6M-F 2014-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.8266 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.56 35.85 98.2 0.061 0.99 16.8 9.2 7169 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.56 1.6 98.6 0.984 0.883 2.3 9.6
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 SAD THROUGHOUT 1.56 35.85 6787 367 98.09 0.14621 0.14386 0.1527 0.1916 0.189 RANDOM 29.488
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] -1.3 -0.65 -1.3 4.22
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 33.076 r_sphericity_bonded 18.862 r_scangle_other 4.201 r_long_range_B_refined 4.08 r_long_range_B_other 4.037 r_scbond_it 3.296 r_scbond_other 3.29 r_rigid_bond_restr 3.237 r_angle_refined_deg 2.75 r_angle_other_deg 1.537
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 33.076 r_sphericity_bonded 18.862 r_scangle_other 4.201 r_long_range_B_refined 4.08 r_long_range_B_other 4.037 r_scbond_it 3.296 r_scbond_other 3.29 r_rigid_bond_restr 3.237 r_angle_refined_deg 2.75 r_angle_other_deg 1.537 r_chiral_restr 0.07 r_bond_refined_d 0.027 r_gen_planes_refined 0.027 r_gen_planes_other 0.005 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_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 159 Solvent Atoms 49 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling SHELXCD phasing xia2 data reduction