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Two-Component response regulator NarL/DNA Complex: DNA Bending Found in a High Affinity Site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RNL DNA-Binding Domain of 1RNL bound to DNA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 ammonium sulfate, TRIS, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.65 52.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.257 α = 90 b = 52.741 β = 90 c = 83.863 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 105 CCD ADSC QUANTUM 4 Collimating mirror optics, double slit monochromator 2000-08-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 1.10002 NSLS X8C
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 2.13 100 94 0.048 19.1 2.9 69333 69333 -3 21.5
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) 2.13 2.18 73.3 0.194 5.2 2.7 3610
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT DNA-Binding Domain of 1RNL bound to DNA 2.12 8.97 36074 36074 1797 96.2 0.228 0.2309 0.273 random 34.6
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] -8.32 -10.24 18.56
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 17.6 c_scangle_it 2.564 c_mcangle_it 1.982 c_scbond_it 1.82 c_mcbond_it 1.276 c_angle_deg 1.058 c_improper_angle_d 1.04 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2201 Nucleic Acid Atoms 1628 Solvent Atoms 330 Heterogen Atoms 40
Software Software Software Name Purpose DENZO data reduction TRUNCATE data reduction GLRF phasing CNS refinement CCP4 data scaling