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Crystal Structure of Salmonella typhimurium AI-2 receptor LsrB in complex with R-THMF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 PEG 4000, sodium chloride, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 25K
Crystal Properties Matthews coefficient Solvent content 2.3 46.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.824 α = 90 b = 76.623 β = 90 c = 109.581 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 ADSC QUANTUM 4 2002-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25
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 1.3 63.25 97 0.082 9.7 77033
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.3 1.334 87
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.3 63.25 76855 72992 3863 97.03 0.1578 0.15643 0.15563 0.1575 0.17156 0.1707 RANDOM 8.753
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] -0.07 0.27 -0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.792 r_scangle_it 2.581 r_scbond_it 1.573 r_sphericity_free 1.325 r_angle_refined_deg 1.257 r_mcangle_it 1.068 r_sphericity_bonded 1.007 r_angle_other_deg 0.976 r_rigid_bond_restr 0.756 r_mcbond_it 0.604
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.792 r_scangle_it 2.581 r_scbond_it 1.573 r_sphericity_free 1.325 r_angle_refined_deg 1.257 r_mcangle_it 1.068 r_sphericity_bonded 1.007 r_angle_other_deg 0.976 r_rigid_bond_restr 0.756 r_mcbond_it 0.604 r_symmetry_vdw_other 0.248 r_nbd_other 0.234 r_nbd_refined 0.199 r_symmetry_hbond_refined 0.11 r_xyhbond_nbd_refined 0.103 r_chiral_restr 0.102 r_symmetry_vdw_refined 0.097 r_nbtor_other 0.084 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2412 Nucleic Acid Atoms Solvent Atoms 371 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling EPMR phasing