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Novel natural FXR modulator with a unique binding mode
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293.15 0.2M sodium chloride, 0.1M HEPES pH 7.5, 25% w/v polyethylene glycol 3350
Crystal Properties Matthews coefficient Solvent content 2.47 50.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.748 α = 90 b = 34.951 β = 90.74 c = 144.107 γ = 90
Symmetry Space Group P 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293.15 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 2.58 50 97.5 0.079 10.2 4.4 17753 16539
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 2.58 2.61 96.4 0.278 4.3
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.58 36.338 16539 818 97.77 0.1972 0.1946 0.2491 0.2618 RANDOM 36.114
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] -0.71 0.62 -0.39 1.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.642 r_dihedral_angle_4_deg 19.431 r_dihedral_angle_3_deg 18.516 r_dihedral_angle_1_deg 6.301 r_mcangle_it 4.273 r_mcbond_it 2.767 r_mcbond_other 2.766 r_angle_refined_deg 2.024 r_angle_other_deg 0.908 r_chiral_restr 0.099
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.642 r_dihedral_angle_4_deg 19.431 r_dihedral_angle_3_deg 18.516 r_dihedral_angle_1_deg 6.301 r_mcangle_it 4.273 r_mcbond_it 2.767 r_mcbond_other 2.766 r_angle_refined_deg 2.024 r_angle_other_deg 0.908 r_chiral_restr 0.099 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3905 Nucleic Acid Atoms Solvent Atoms 35 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling PDB_EXTRACT data extraction Coot model building PHASER phasing HKL-2000 data reduction