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The structure of ligand binding domain of LasR in complex with TP-1 homolog, compound 11
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 282.1 80 mM calcium acetate, 40 mM HEPES (pH 7.3), 3 mM dithiothreitol, and 16% polyethylene glycol 4000
Crystal Properties Matthews coefficient Solvent content 2.35 47.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.276 α = 90 b = 84.467 β = 95.69 c = 156.203 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 80 CCD RAYONIX MX-300 2015-02-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
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 1.7 25 99.3 18.2 5.4 138762
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 1.7 1.76
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 THROUGHOUT 1.7 42.23 138762 7321 95.01 0.18018 0.17858 0.1895 0.20986 0.2178 RANDOM 17.369
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] -0.24 -0.17 0.24 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.48 r_dihedral_angle_4_deg 20.645 r_dihedral_angle_3_deg 15.646 r_long_range_B_refined 5.938 r_long_range_B_other 5.886 r_dihedral_angle_1_deg 5.725 r_scangle_other 4.786 r_scbond_it 3.104 r_scbond_other 3.103 r_mcangle_it 2.639
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.48 r_dihedral_angle_4_deg 20.645 r_dihedral_angle_3_deg 15.646 r_long_range_B_refined 5.938 r_long_range_B_other 5.886 r_dihedral_angle_1_deg 5.725 r_scangle_other 4.786 r_scbond_it 3.104 r_scbond_other 3.103 r_mcangle_it 2.639 r_mcangle_other 2.639 r_angle_refined_deg 1.878 r_mcbond_it 1.755 r_mcbond_other 1.752 r_angle_other_deg 1.634 r_chiral_restr 0.128 r_bond_refined_d 0.019 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10448 Nucleic Acid Atoms Solvent Atoms 750 Heterogen Atoms 264
Software Software Software Name Purpose REFMAC refinement UCSD-system data processing XDS data scaling PHASER phasing