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CRYSTAL STRUCTURE OF ENTEROBACTERIA PHAGE RB69 GP43 DNA POLYMERASE COMPLEXED WITH 8-OXOGUANOSINE CONTAINING DNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IG9 PDB ENTRY 1IG9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 PEG 350MME, Calcium chloride, Tris-HCl, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K, pH 7.50
Crystal Properties Matthews coefficient Solvent content 2.65 53.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.822 α = 90 b = 118.565 β = 90 c = 127.224 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 CUSTOM-MADE 2002-07-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.8 50 99.9 0.116 11.0777 4.5 30441
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.8 2.9 100 0.616 1.84
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 1IG9 2.8 46.06 28854 1533 99.52 0.20726 0.20389 0.203 0.27067 0.2694 RANDOM 19.234
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] -1.53 -0.22 1.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.511 r_scangle_it 2.818 r_angle_refined_deg 1.865 r_scbond_it 1.732 r_mcangle_it 1.04 r_angle_other_deg 0.975 r_mcbond_it 0.548 r_metal_ion_refined 0.33 r_symmetry_hbond_refined 0.262 r_nbd_refined 0.239
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.511 r_scangle_it 2.818 r_angle_refined_deg 1.865 r_scbond_it 1.732 r_mcangle_it 1.04 r_angle_other_deg 0.975 r_mcbond_it 0.548 r_metal_ion_refined 0.33 r_symmetry_hbond_refined 0.262 r_nbd_refined 0.239 r_nbd_other 0.236 r_symmetry_vdw_other 0.225 r_xyhbond_nbd_refined 0.188 r_symmetry_vdw_refined 0.122 r_nbtor_other 0.093 r_chiral_restr 0.091 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 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_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 7356 Nucleic Acid Atoms 652 Solvent Atoms 84 Heterogen Atoms 31
Software Software Software Name Purpose HKL-2000 data collection SCALEPACK data scaling AMoRE phasing REFMAC refinement HKL-2000 data reduction