8CCC

The Fk1 domain of FKBP51 in complex with 2-(3-((R)-1-(((S)-1-((S)-2-(5-chlorothiophen-2-yl)propanoyl)piperidine-2-carbonyl)oxy)-3-(3,4-dimethoxyphenyl)propyl)phenoxy)acetic acid


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4TW7 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP29322% PEG3350, 0.1 M HEPES pH 7.5, 0.2 M ammonium acetate
Crystal Properties
Matthews coefficientSolvent content
2.5752.1

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 48.651α = 90
b = 50.882β = 90
c = 58.103γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2021-09-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.10.918400BESSY14.1

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
11.5548.6599.90.0540.0590.0240.99918.410.921573
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.551.581.2181.3530.5810.80910

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT4TW71.5538.30821412106499.3640.2170.21610.238932.336
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]
-1.9355.595-3.66
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg17.062
r_dihedral_angle_3_deg13.475
r_dihedral_angle_1_deg8.545
r_lrange_it6.036
r_lrange_other5.987
r_dihedral_angle_2_deg4.202
r_scangle_it3.492
r_scangle_other3.491
r_mcangle_it2.527
r_mcangle_other2.525
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg17.062
r_dihedral_angle_3_deg13.475
r_dihedral_angle_1_deg8.545
r_lrange_it6.036
r_lrange_other5.987
r_dihedral_angle_2_deg4.202
r_scangle_it3.492
r_scangle_other3.491
r_mcangle_it2.527
r_mcangle_other2.525
r_scbond_it2.196
r_scbond_other2.194
r_angle_refined_deg1.727
r_mcbond_it1.678
r_mcbond_other1.678
r_chiral_restr_other0.761
r_angle_other_deg0.593
r_nbd_refined0.206
r_symmetry_nbd_other0.189
r_nbtor_refined0.173
r_nbd_other0.146
r_xyhbond_nbd_refined0.136
r_symmetry_nbd_refined0.082
r_symmetry_nbtor_other0.079
r_chiral_restr0.068
r_symmetry_xyhbond_nbd_refined0.031
r_bond_refined_d0.01
r_gen_planes_refined0.009
r_bond_other_d0.003
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms939
Nucleic Acid Atoms
Solvent Atoms84
Heterogen Atoms43

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing