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E. COLI DNA POLYMERASE BETA SUBUNIT
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2POL PDB ENTRY 2POL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 100 mM Na/H MES, 50 to 60 mM CaCl2, 30% v/v PEG 400, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.42 49.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.012 α = 90 b = 66.595 β = 114.02 c = 80.779 γ = 90
Symmetry Space Group P 1 21 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 2001-12-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 1.00000 APS 14-BM-C
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 1.85 50 0.056 1.92 62043 62043 -2
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) 1.85 1.92 91.7 0.467 1.75 1.84
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 2POL 1.848 50 62026 58907 3119 93.13 0.19119 0.18839 0.1971 0.24461 0.1968 RANDOM 26.719
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] -0.88 0.37 1.67 -0.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.324 r_scangle_it 9.547 r_dihedral_angle_1_deg 8.103 r_scbond_it 6.38 r_mcangle_it 3.975 r_mcbond_it 2.545 r_angle_refined_deg 1.37 r_angle_other_deg 0.718 r_symmetry_hbond_other 0.605 r_symmetry_vdw_other 0.371
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.324 r_scangle_it 9.547 r_dihedral_angle_1_deg 8.103 r_scbond_it 6.38 r_mcangle_it 3.975 r_mcbond_it 2.545 r_angle_refined_deg 1.37 r_angle_other_deg 0.718 r_symmetry_hbond_other 0.605 r_symmetry_vdw_other 0.371 r_xyhbond_nbd_other 0.349 r_symmetry_hbond_refined 0.344 r_symmetry_vdw_refined 0.297 r_nbd_other 0.293 r_nbd_refined 0.26 r_xyhbond_nbd_refined 0.253 r_chiral_restr 0.109 r_nbtor_other 0.094 r_gen_planes_refined 0.022 r_gen_planes_other 0.014 r_bond_refined_d 0.008 r_bond_other_d 0.003 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5865 Nucleic Acid Atoms Solvent Atoms 665 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement