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Crystal structure of the catalytic alpha subunit of E. Coli replicative DNA polymerase III
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 18% PEG3350 0.3M NAH2PO4 0.1M HEPES PH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.74 55.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.112 α = 90 b = 98.264 β = 90 c = 139.475 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 CCD ADSC QUANTUM 210 Mirrors (Si111) 2005-07-15 M SINGLE WAVELENGTH 2 1 3 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.1159 ALS 8.3.1
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 40 96.6 0.079 13.2 3.8 38487 1.13 1.13
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 2.5 2.59 87.9 0.792 1.13 2.8 3463
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 SAD THROUGHOUT 2.6 20 35825 34532 1736 96.67 0.223 0.223 0.219 0.2152 0.287 0.2812 RANDOM 64.477
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] -4.56 3.09 1.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.732 r_dihedral_angle_3_deg 22.317 r_dihedral_angle_4_deg 19.87 r_dihedral_angle_1_deg 6.585 r_scangle_it 2.394 r_scbond_it 1.552 r_angle_refined_deg 1.453 r_mcangle_it 0.924 r_mcbond_it 0.615 r_nbtor_refined 0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.732 r_dihedral_angle_3_deg 22.317 r_dihedral_angle_4_deg 19.87 r_dihedral_angle_1_deg 6.585 r_scangle_it 2.394 r_scbond_it 1.552 r_angle_refined_deg 1.453 r_mcangle_it 0.924 r_mcbond_it 0.615 r_nbtor_refined 0.315 r_symmetry_hbond_refined 0.283 r_nbd_refined 0.24 r_symmetry_vdw_refined 0.17 r_xyhbond_nbd_refined 0.169 r_chiral_restr 0.102 r_bond_refined_d 0.014 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7148 Nucleic Acid Atoms Solvent Atoms 104 Heterogen Atoms 15
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHELX phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling SHELXD phasing