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Structural insights into the cryptic DNA dependent ATP-ase activity of UvrB
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1D9X PDB entry 1D9X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 8.5 289 18-20% (w/v) PEG 10000 0.1M Tris-Hcl, pH 8.5, Microbatch, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.12 41.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.231 α = 90 b = 98.215 β = 90 c = 95.405 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 MARRESEARCH Mirrors 2005-04-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.976 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.1 30 96.1 0.082 0.082 5.8 5.8 39593 39593 2.4 2.4 25
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.1 2.21 92.9 0.31 0.31 2.4 5.8 5487
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 (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1D9X 2.1 30 39593 39593 1953 96.1 0.22961 0.22961 0.22679 0.28485 RANDOM 23.146
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] 2.03 -0.85 -1.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.976 r_dihedral_angle_4_deg 19.562 r_dihedral_angle_3_deg 18.419 r_dihedral_angle_1_deg 6.34 r_scangle_it 3.396 r_scbond_it 2.21 r_angle_refined_deg 1.61 r_mcangle_it 1.273 r_mcbond_it 0.78 r_symmetry_hbond_refined 0.321
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.976 r_dihedral_angle_4_deg 19.562 r_dihedral_angle_3_deg 18.419 r_dihedral_angle_1_deg 6.34 r_scangle_it 3.396 r_scbond_it 2.21 r_angle_refined_deg 1.61 r_mcangle_it 1.273 r_mcbond_it 0.78 r_symmetry_hbond_refined 0.321 r_nbtor_refined 0.304 r_symmetry_vdw_refined 0.273 r_nbd_refined 0.219 r_xyhbond_nbd_refined 0.178 r_chiral_restr 0.107 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5199 Nucleic Acid Atoms 61 Solvent Atoms 204 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling MOLREP phasing