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Identification of a novel FXR ligand that regulates metabolism
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293.15 50mM HEPES pH7.0, 3.5M sodium formate
Crystal Properties Matthews coefficient Solvent content 3.51 64.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.008 α = 90 b = 161.759 β = 90 c = 169.018 γ = 90
Symmetry Space Group I 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 315r 2012-05-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 1.0050 SSRF BL17U
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 2.3 50 64.1 0.104 10.4 7.5 20898
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 2.3 2.34 0.77 1
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 2.9 50 15531 819 98.27 0.27872 0.27741 0.2842 0.30221 0.304 RANDOM 75.502
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] 0.02 -0.12 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.285 r_dihedral_angle_3_deg 23.304 r_dihedral_angle_4_deg 18.987 r_long_range_B_other 13.618 r_long_range_B_refined 13.612 r_scangle_other 11.839 r_mcangle_it 8.946 r_mcangle_other 8.946 r_scbond_other 8.692 r_scbond_it 8.685
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.285 r_dihedral_angle_3_deg 23.304 r_dihedral_angle_4_deg 18.987 r_long_range_B_other 13.618 r_long_range_B_refined 13.612 r_scangle_other 11.839 r_mcangle_it 8.946 r_mcangle_other 8.946 r_scbond_other 8.692 r_scbond_it 8.685 r_dihedral_angle_1_deg 7.378 r_mcbond_it 5.966 r_mcbond_other 5.964 r_angle_refined_deg 1.73 r_angle_other_deg 1.043 r_chiral_restr 0.088 r_bond_refined_d 0.012 r_bond_other_d 0.006 r_gen_planes_refined 0.006 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 3484 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms 148
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling Coot model building PHASER phasing