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Ligand binding domain of the glucocorticoid receptor complexed with fluticazone furoate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1M2Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 295 100mM BisTrisPropane, 2.2M NaCl, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.9 57.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 127.34 α = 90 b = 127.34 β = 90 c = 77.772 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD MAR CCD 165 mm 2003-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1 2.84 110.43 97.05 0.074 25 7.3 16640 15786 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.83 2.91 84.15 0.361 2.8 3.7 1327
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1M2Z 2.84 110.43 2 2 16640 15786 850 97.05 0.20984 0.20681 0.26675 0.3057 RANDOM 74.392
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] -3.93 -1.97 -3.93 5.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.981 r_dihedral_angle_3_deg 15.01 r_dihedral_angle_4_deg 11.944 r_dihedral_angle_1_deg 4.335 r_scangle_it 1.422 r_angle_refined_deg 1.181 r_scbond_it 0.821 r_mcangle_it 0.529 r_nbtor_refined 0.304 r_mcbond_it 0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.981 r_dihedral_angle_3_deg 15.01 r_dihedral_angle_4_deg 11.944 r_dihedral_angle_1_deg 4.335 r_scangle_it 1.422 r_angle_refined_deg 1.181 r_scbond_it 0.821 r_mcangle_it 0.529 r_nbtor_refined 0.304 r_mcbond_it 0.28 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.136 r_xyhbond_nbd_refined 0.117 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4002 Nucleic Acid Atoms Solvent Atoms 20 Heterogen Atoms 74
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing