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X-ray structure of GW3965 synthetic agonist bound to the LXR-alpha
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other In-house LXR-alpha structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 100mM (NH4)2SO4, 40mM Tris-HCl pH 7.8, 60mM Imidazole pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.55 51.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.593 α = 90 b = 125.593 β = 90 c = 92.405 γ = 90
Symmetry Space Group I 4 2 2
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 2007-04-27 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.9330 ESRF ID14-2
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 15.75 25146 25146
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.1 100
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 In-house LXR-alpha structure 2 15.75 23788 1279 99.69 0.20085 0.19912 0.23358 0.2242 RANDOM 21.605
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] 0.06 0.06 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.787 r_dihedral_angle_4_deg 19.604 r_dihedral_angle_3_deg 14.402 r_dihedral_angle_1_deg 5.384 r_scangle_it 3.691 r_scbond_it 2.518 r_mcangle_it 1.508 r_angle_refined_deg 1.485 r_mcbond_it 1.4 r_angle_other_deg 1.009
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.787 r_dihedral_angle_4_deg 19.604 r_dihedral_angle_3_deg 14.402 r_dihedral_angle_1_deg 5.384 r_scangle_it 3.691 r_scbond_it 2.518 r_mcangle_it 1.508 r_angle_refined_deg 1.485 r_mcbond_it 1.4 r_angle_other_deg 1.009 r_symmetry_vdw_other 0.291 r_mcbond_other 0.224 r_nbd_refined 0.209 r_nbd_other 0.185 r_nbtor_refined 0.179 r_xyhbond_nbd_refined 0.151 r_symmetry_vdw_refined 0.134 r_symmetry_hbond_refined 0.122 r_chiral_restr 0.088 r_nbtor_other 0.087 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1922 Nucleic Acid Atoms Solvent Atoms 118 Heterogen Atoms 46
Software Software Software Name Purpose ADSC data collection AMoRE phasing REFMAC refinement MOSFLM data reduction SCALA data scaling