3CLD

Ligand binding domain of the glucocorticoid receptor complexed with fluticazone furoate


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 295.0
Details 100mM BisTrisPropane, 2.2M NaCl, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 127.34 α = 90
b = 127.34 β = 90
c = 77.77 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm -- 2003-12-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (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
2.84 110.43 97.05 0.074 -- -- 7.3 16640 15786 2.0 2.0 --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.83 2.91 84.15 0.361 -- 2.8 3.7 1327

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.84 110.43 2.0 2.0 16640 15786 850 97.05 -- 0.20984 0.20681 0.26675 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.838 2.912 1327 68 994 0.312 0.431 -- 84.15
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 74.392
Anisotropic B[1][1] -3.93
Anisotropic B[1][2] -1.97
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.93
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 5.9
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 0.529
r_dihedral_angle_3_deg 15.01
r_symmetry_vdw_refined 0.136
r_bond_refined_d 0.009
r_nbtor_refined 0.304
r_scangle_it 1.422
r_xyhbond_nbd_refined 0.117
r_mcbond_it 0.28
r_scbond_it 0.821
r_angle_refined_deg 1.181
r_gen_planes_refined 0.003
r_nbd_refined 0.2
r_dihedral_angle_1_deg 4.335
r_dihedral_angle_2_deg 34.981
r_dihedral_angle_4_deg 11.944
r_chiral_restr 0.07
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4002
Nucleic Acid Atoms 0
Heterogen Atoms 74
Solvent Atoms 20

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
HKL-2000 data collection
HKL-2000 data reduction
HKL-2000 data scaling
CNS phasing