☰ Navigation Tabs
Structure of the high fidelity DNA polymerase I with the oxidative formamidopyrimidine-dA DNA lesion in the pre-insertion site.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1U45 PDB ENTRY 1U45
Crystallization Crystal Properties Matthews coefficient Solvent content 2.87 56.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.528 α = 90 b = 93.265 β = 90 c = 106.107 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 100 PIXEL DECTRIS PILATUS 6M 2011-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 2.05 45.37 99.8 0.15 6.6 4.2 55071 1.5 25.35
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 2.05 2.16 100 0.6 2.4 4.2
Refinement Statistics Diffraction ID Structure Solution 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB ENTRY 1U45 2.05 41.156 54997 2758 99.74 0.1905 0.1886 0.2035 0.2256 0.2296
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] 10.9087 -3.1645 -7.7442
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 17.61 f_angle_d 1.212 f_chiral_restr 0.078 f_bond_d 0.009 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4653 Nucleic Acid Atoms 432 Solvent Atoms 227 Heterogen Atoms 44
Software Software Software Name Purpose PHENIX refinement XDS data reduction SCALA data scaling PHASER phasing