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Structural and biochemical characterization of ClfB:ligand interactions
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8 298 0.9M sodium citrate, 90mM imidazole pH 8.0, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 4 69.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.238 α = 90 b = 86.238 β = 90 c = 83.864 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 21349
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.5 28.75 21307 1096 99.95 0.1793 0.1778 0.1763 0.2073 0.2054 RANDOM 25.8039
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] -0.36 -0.36 0.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.424 r_dihedral_angle_4_deg 15.87 r_dihedral_angle_3_deg 13.22 r_dihedral_angle_1_deg 6.023 r_scangle_it 4.015 r_scbond_it 2.551 r_angle_refined_deg 1.55 r_mcangle_it 1.532 r_mcbond_it 0.842 r_nbtor_refined 0.318
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.424 r_dihedral_angle_4_deg 15.87 r_dihedral_angle_3_deg 13.22 r_dihedral_angle_1_deg 6.023 r_scangle_it 4.015 r_scbond_it 2.551 r_angle_refined_deg 1.55 r_mcangle_it 1.532 r_mcbond_it 0.842 r_nbtor_refined 0.318 r_symmetry_vdw_refined 0.224 r_nbd_refined 0.213 r_xyhbond_nbd_refined 0.149 r_chiral_restr 0.11 r_symmetry_hbond_refined 0.062 r_bond_refined_d 0.016 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2529 Nucleic Acid Atoms Solvent Atoms 204 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing