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Insight in DNA Replication: The crystal structure of DNA Polymerase B1 from the archaeon Sulfolobus solfataricus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 294 ammonium sulphate, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 3.96 68.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 187.47 α = 90 b = 68.8 β = 107.94 c = 125.85 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 4 2000-10-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.9326 ESRF ID14-2
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 2.4 30 100 0.114 4.1 5.5 59688 59688 1 1 50
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.4 2.46 86.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.4 30 56677 56677 3011 99.49 0.264 0.23443 0.23246 0.2297 0.27222 0.2655 RANDOM 54.581
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] -2.85 -2.09 -1.99 3.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.408 r_scangle_it 2.644 r_scbond_it 1.568 r_mcangle_it 1.299 r_angle_refined_deg 1.268 r_angle_other_deg 0.825 r_mcbond_it 0.696 r_nbd_other 0.213 r_symmetry_vdw_other 0.199 r_nbd_refined 0.195
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.408 r_scangle_it 2.644 r_scbond_it 1.568 r_mcangle_it 1.299 r_angle_refined_deg 1.268 r_angle_other_deg 0.825 r_mcbond_it 0.696 r_nbd_other 0.213 r_symmetry_vdw_other 0.199 r_nbd_refined 0.195 r_xyhbond_nbd_refined 0.186 r_symmetry_hbond_refined 0.168 r_symmetry_vdw_refined 0.094 r_nbtor_other 0.084 r_chiral_restr 0.08 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5936 Nucleic Acid Atoms Solvent Atoms 248 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement DENZO data reduction CCP4 data scaling AMoRE phasing