6T4T

ROR(gamma)t ligand binding domain in complex with 20-alpha-hydroxycholesterol and allosteric ligand FM26


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6SAL 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP293none - crystallized in storage buffer upon evaporation
Crystal Properties
Matthews coefficientSolvent content
2.7655.51

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 108.501α = 90
b = 108.501β = 90
c = 99.286γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2019-07-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPETRA III, DESY BEAMLINE P111.033218PETRA III, DESYP11

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)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.6254.311000.1760.1770.0150.999231374434725.08
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.6181.660.908

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT6SAL1.6254.2642138210299.60.135130.133150.1738RANDOM29.274
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]
-0.95-0.47-0.953.08
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.012
r_dihedral_angle_4_deg16.234
r_dihedral_angle_3_deg12.686
r_dihedral_angle_1_deg5.196
r_long_range_B_refined4.69
r_long_range_B_other4.55
r_scangle_other4.451
r_scbond_it3.731
r_scbond_other3.73
r_mcangle_other3.066
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.012
r_dihedral_angle_4_deg16.234
r_dihedral_angle_3_deg12.686
r_dihedral_angle_1_deg5.196
r_long_range_B_refined4.69
r_long_range_B_other4.55
r_scangle_other4.451
r_scbond_it3.731
r_scbond_other3.73
r_mcangle_other3.066
r_mcangle_it3.062
r_rigid_bond_restr2.83
r_mcbond_it2.389
r_mcbond_other2.372
r_angle_refined_deg1.634
r_angle_other_deg1.31
r_chiral_restr0.11
r_bond_refined_d0.017
r_gen_planes_refined0.009
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1980
Nucleic Acid Atoms
Solvent Atoms198
Heterogen Atoms73

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
DIALSdata reduction
Aimlessdata scaling
PHASERphasing