6R67

Crystal structure of transthyretin in complex with CHF5075, a flurbiprofen analogue


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP72932.2 M ammonium sulfate, 0.1M KCl, 30 mM sodium phosphate, pH 7.0
Crystal Properties
Matthews coefficientSolvent content
1.8131.87

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.319α = 90
b = 84.965β = 90
c = 63.891γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2017-12-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-10.95372ESRFID23-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)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
11.342.321000.0810.03420.512.357493
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.31.371000.8180.359411.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT1.337.9154541286999.910.181860.180690.20461RANDOM13.987
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]
-0.53-0.430.96
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg25.704
r_dihedral_angle_3_deg15.29
r_dihedral_angle_4_deg14.195
r_dihedral_angle_1_deg7.321
r_long_range_B_refined5.677
r_long_range_B_other5.676
r_scangle_other4.157
r_scbond_it2.709
r_scbond_other2.708
r_mcangle_other2.402
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg25.704
r_dihedral_angle_3_deg15.29
r_dihedral_angle_4_deg14.195
r_dihedral_angle_1_deg7.321
r_long_range_B_refined5.677
r_long_range_B_other5.676
r_scangle_other4.157
r_scbond_it2.709
r_scbond_other2.708
r_mcangle_other2.402
r_mcangle_it2.401
r_angle_refined_deg1.85
r_mcbond_it1.54
r_mcbond_other1.518
r_angle_other_deg1.494
r_chiral_restr0.093
r_bond_refined_d0.018
r_gen_planes_refined0.012
r_bond_other_d0.005
r_gen_planes_other0.003
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 AtomsNumber
Protein Atoms1792
Nucleic Acid Atoms
Solvent Atoms173
Heterogen Atoms40

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing