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CRYSTAL STRUCTURE OF THE 2:1 NETROPSIN-DNA DECAMER D(CBRCCCCIIIII) COMPLEX WITH END-TO-END BINDING
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other fiber B-DNA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 pH 7.00, VAPOR DIFFUSION
Crystal Properties Matthews coefficient Solvent content 3.42 64.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.13 α = 90 b = 32.13 β = 90 c = 143.92 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 293 IMAGE PLATE RIGAKU RAXIS IIC M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1
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 2.5 26 60.3 0.059 3.14 1746 4 22.8
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) 2.5 2.67 13.6 0.139 3.1
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-Work (DCC) R-Free (Depositor) Mean Isotropic B X-RAY DIFFRACTION D(CCCCCIIIII) 2.5 8 2 1667 163 60.3 0.211 0.211 0.2174 0.298 17.8
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 x_dihedral_angle_d 21.2 x_angle_d 1.69 x_improper_angle_d 1.38 x_bond_d 0.008 x_bond_d_na x_bond_d_prot x_angle_d_na x_angle_d_prot x_angle_deg x_angle_deg_na
RMS Deviations Key Refinement Restraint Deviation x_dihedral_angle_d 21.2 x_angle_d 1.69 x_improper_angle_d 1.38 x_bond_d 0.008 x_bond_d_na x_bond_d_prot x_angle_d_na x_angle_d_prot x_angle_deg x_angle_deg_na x_angle_deg_prot x_dihedral_angle_d_na x_dihedral_angle_d_prot x_improper_angle_d_na x_improper_angle_d_prot x_mcbond_it x_mcangle_it x_scbond_it x_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 394 Solvent Atoms 38 Heterogen Atoms 64
Software Software Software Name Purpose AMoRE phasing X-PLOR refinement MSC data reduction