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ROR(gamma)t ligand binding domain in complex with 20-alpha-hydroxycholesterol and allosteric ligand Glenmark
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6SAL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 none - crystallized in storage buffer upon evaporation
Crystal Properties Matthews coefficient Solvent content 2.76 55.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.317 α = 90 b = 108.317 β = 90 c = 99.332 γ = 120
Symmetry Space Group P 61 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 PIXEL DECTRIS PILATUS 6M 2019-07-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.033218 PETRA III, DESY P11
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.71 54.16 99.9 0.116 0.117 0.019 0.999 18.6 37.3 37690
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.71 1.75 0.731
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6SAL 1.71 54.16 35675 1920 99.84 0.16167 0.1596 0.1737 0.20003 0.2175 RANDOM 33.344
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] -1.38 -0.69 -1.38 4.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.924 r_dihedral_angle_4_deg 18.342 r_dihedral_angle_3_deg 12.397 r_dihedral_angle_1_deg 4.898 r_long_range_B_refined 4.269 r_long_range_B_other 4.083 r_scangle_other 2.91 r_mcangle_it 2.682 r_mcangle_other 2.681 r_scbond_it 2.248
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.924 r_dihedral_angle_4_deg 18.342 r_dihedral_angle_3_deg 12.397 r_dihedral_angle_1_deg 4.898 r_long_range_B_refined 4.269 r_long_range_B_other 4.083 r_scangle_other 2.91 r_mcangle_it 2.682 r_mcangle_other 2.681 r_scbond_it 2.248 r_scbond_other 2.247 r_mcbond_it 1.91 r_mcbond_other 1.904 r_angle_refined_deg 1.15 r_angle_other_deg 1.111 r_rigid_bond_restr 1.081 r_chiral_restr 0.072 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1972 Nucleic Acid Atoms Solvent Atoms 176 Heterogen Atoms 69
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction DIALS data reduction Aimless data scaling PHASER phasing