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DNA Adduct Bypass Polymerization by Sulfolobus solfataricus Dpo4. Analysis and Crystal Structures of Multiple Base-Pair Substitution and Frameshift Products with the Adduct 1,N2-Ethenoguanine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BQ3 PDB ENTRY 2BQ3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 16% PEG 3350, 0.1 M HEPES PH 7.0, 100 MM CALCIUM ACETATE, 2.5% GLYCEROL, 0.5 MM DATP
Crystal Properties Matthews coefficient Solvent content 2.61 52.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.528 α = 90 b = 103.027 β = 90 c = 53.097 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 IMAGE PLATE MARRESEARCH MAR300 2004-11-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID APS 22-ID
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 2.37 42.32 92.6 0.08 10.6 8.2 20350 1 65.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.37 2.52 65.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2BQ3 2.37 42.32 20350 998 92.6 0.223 0.223 0.2305 0.26 0.2629 RANDOM 56.6
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] 4.2 -5.38 1.18
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22 c_scangle_it 3.35 c_mcangle_it 2.34 c_scbond_it 2.11 c_mcbond_it 1.37 c_angle_deg 1.2 c_improper_angle_d 0.97 c_bond_d 0.007 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22 c_scangle_it 3.35 c_mcangle_it 2.34 c_scbond_it 2.11 c_mcbond_it 1.37 c_angle_deg 1.2 c_improper_angle_d 0.97 c_bond_d 0.007 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2744 Nucleic Acid Atoms 611 Solvent Atoms 109 Heterogen Atoms 33
Software Software Software Name Purpose CNS refinement HKL-2000 data reduction HKL-2000 data scaling