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DIRECT OBSERVATION OF TWO BASE-PAIRING MODES OF A CYTOSINE-THYMINE ANALOGUE WITH GUANINE IN A DNA Z-FORM DUPLEX: SIGNIFICANCE FOR BASE ANALOGUE MUTAGENESIS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DCG ZDF002
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 277 pH 6.50, VAPOR DIFFUSION, temperature 277.00K
Crystal Properties Matthews coefficient Solvent content 1.65 25.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 18.23 α = 90 b = 30.63 β = 90 c = 43.78 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 292 DIFFRACTOMETER RIGAKU AFC-5R
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT ZDF002 1.7 8 4 2798 100 0.179
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]
RMS Deviations Key Refinement Restraint Deviation n_phos_bond_it 10.38 n_phos_angle_it 7.71 n_sugar_angle_it 5.74 n_sugar_bond_it 4.79 n_multtor_nbd 0.278 n_singtor_nbd 0.145 n_chiral_restr 0.138 n_sugar_bond_angle_d 0.076 n_phos_bond_d 0.071 n_phos_bond_angle_d 0.048
RMS Deviations Key Refinement Restraint Deviation n_phos_bond_it 10.38 n_phos_angle_it 7.71 n_sugar_angle_it 5.74 n_sugar_bond_it 4.79 n_multtor_nbd 0.278 n_singtor_nbd 0.145 n_chiral_restr 0.138 n_sugar_bond_angle_d 0.076 n_phos_bond_d 0.071 n_phos_bond_angle_d 0.048 n_plane_restr 0.044 n_sugar_bond_d 0.041 n_bond_d n_angle_d n_planar_d n_hb_or_metal_coord n_bond_angle_restr n_dihedral_angle_restr n_impr_tor n_xhyhbond_nbd
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 240 Solvent Atoms 51 Heterogen Atoms 6
Software Software Software Name Purpose MERLOT phasing NUCLSQ refinement