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THE STRUCTURAL BASIS FOR DNA PROTECTION BY E. COLI DPS PROTEIN
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other DPS D75C,D78A UNPUBLISHED STRUCTURE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.1 298 10mM MOPS, 100mM KCl, 10% glycerol + 100mM TrisHCL, 100mM KCl, 10% glycerol, 11% PEG
8000, and 5mM DTT , pH 8.1, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.43 49.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.961 α = 90 b = 139.123 β = 90 c = 263.264 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 105 IMAGE PLATE MACSCIENCE 1997-07-22 M SINGLE WAVELENGTH 2 1 95 AREA DETECTOR SDMS 1999-05-05
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE MACSCIENCE 2 SYNCHROTRON NSLS BEAMLINE X12B NSLS X12B
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 30 98.2 0.076 8.2 3.63 273217 75305 85.7
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 2.59 2.64 99.7 0.291 3.62 13825
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R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT DPS D75C,D78A UNPUBLISHED STRUCTURE 2.6 29.02 75266 65012 6588 97.5 0.209 0.209 0.2266 0.244 0.2602 THIN SHELLS 60.1
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] -0.09 0.8 -0.7
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 17.9 c_scangle_it 2.69 c_mcangle_it 1.97 c_scbond_it 1.76 c_mcbond_it 1.18 c_angle_deg 1.1 c_improper_angle_d 0.72 c_bond_d 0.007 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 17.9 c_scangle_it 2.69 c_mcangle_it 1.97 c_scbond_it 1.76 c_mcbond_it 1.18 c_angle_deg 1.1 c_improper_angle_d 0.72 c_bond_d 0.007 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14872 Nucleic Acid Atoms Solvent Atoms 386 Heterogen Atoms 96
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling CNS refinement CNS phasing