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Crystal Structure of KorA Bound to Operator DNA: Insight into Repressor Cooperation in RP4 Gene Regulation
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 0.5M (NH4)2SO4, 0.1M C6H5NA3O7 2H2O (PH 5.6), 1.0M LI2SO4 H2O, VAPOR DIFFUSION, HANGING DROP, 291 K
Crystal Properties Matthews coefficient Solvent content 3.6 65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.83 α = 90 b = 115.45 β = 114 c = 49.88 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 MARRESEARCH MIRRORS 2006-10-27 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 1.96 50 93.3 0.03 42.5 7.4 31085
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 1.96 2.08 70.1 0.07 17.4 5.3
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT NONE 1.85 57.74 32666 1753 87.2 0.172 0.17 0.201 0.2213 RANDOM 28.79
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 -0.18 2.52 -1.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.705 r_dihedral_angle_4_deg 19.636 r_dihedral_angle_3_deg 11.336 r_dihedral_angle_1_deg 4.669 r_scangle_it 2.841 r_scbond_it 2.451 r_mcangle_it 1.577 r_angle_refined_deg 1.522 r_mcbond_it 1.232 r_angle_other_deg 0.905
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.705 r_dihedral_angle_4_deg 19.636 r_dihedral_angle_3_deg 11.336 r_dihedral_angle_1_deg 4.669 r_scangle_it 2.841 r_scbond_it 2.451 r_mcangle_it 1.577 r_angle_refined_deg 1.522 r_mcbond_it 1.232 r_angle_other_deg 0.905 r_symmetry_vdw_other 0.314 r_symmetry_vdw_refined 0.263 r_nbtor_refined 0.21 r_nbd_refined 0.199 r_nbd_other 0.173 r_xyhbond_nbd_refined 0.14 r_chiral_restr 0.136 r_symmetry_hbond_refined 0.112 r_nbtor_other 0.081 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1479 Nucleic Acid Atoms 1464 Solvent Atoms 317 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling XDS phasing