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Cobalt hexammine induced tautomeric shift in Z-DNA: the structure of d(CGCGCA).d(TGCGCG) in two crystal forms
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other standard FIBER MODEL Z-DNA HEXAMER WITH A-T BASE PAIR AT ONE TERMINAL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.9 293 MPD, sodium cacodylate, cobalt hexammine chloride, spermine, pH 6.9, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.79 30.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 17.976 α = 90 b = 30.926 β = 90 c = 44.625 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 IMAGE PLATE MARRESEARCH mirrors 2003-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.5418
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 1.71 18.11 93.9 0.057 5.8 3.63 2766 2766
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) 1.71 1.77 99.1 0.149
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 standard FIBER MODEL Z-DNA HEXAMER WITH A-T BASE PAIR AT ONE TERMINAL 1.71 18.11 2765 2564 201 93.86 0.226 0.2102 0.2077 0.2103 0.23983 0.2431 RANDOM 19.745
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 0.05 -0.06
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 3.634 r_scbond_it 2.77 r_angle_refined_deg 2.201 r_nbd_refined 0.191 r_xyhbond_nbd_refined 0.182 r_symmetry_hbond_refined 0.131 r_symmetry_vdw_refined 0.126 r_chiral_restr 0.115 r_bond_refined_d 0.017 r_gen_planes_refined 0.012
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 3.634 r_scbond_it 2.77 r_angle_refined_deg 2.201 r_nbd_refined 0.191 r_xyhbond_nbd_refined 0.182 r_symmetry_hbond_refined 0.131 r_symmetry_vdw_refined 0.126 r_chiral_restr 0.115 r_bond_refined_d 0.017 r_gen_planes_refined 0.012 r_bond_other_d r_angle_other_deg r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_mcbond_it r_mcbond_other r_mcangle_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 240 Solvent Atoms 45 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement MAR345 data collection AUTOMAR data reduction AMoRE phasing