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Crystal structure of the TSH receptor in complex with a thyroid-stimulating autoantibody
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XWD PDB ENTRY 1XWD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 292 8% PEG 8000, 0.1M MES, 0.25M ZINC ACETATE, pH 6.00, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.66 53.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.888 α = 90 b = 175.784 β = 90 c = 205.806 γ = 90
Symmetry Space Group I 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 4 2006-11-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.2 0.98 SRS PX14.2
Data Collection Overall ID # 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 1 2.55 30 96.1 0.071 0.071 10.5 4.6 26775 25731 2.5 47.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.55 2.61 99.2 0.361 0.361 4.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1XWD 2.55 26.72 24426 1301 96 0.184 0.181 0.1794 0.245 0.2467 RANDOM 36
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] 0.16 -0.19 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.599 r_dihedral_angle_4_deg 18.934 r_dihedral_angle_3_deg 16.207 r_dihedral_angle_1_deg 6.528 r_scangle_it 3.392 r_mcangle_it 2.673 r_scbond_it 2.261 r_mcbond_it 1.775 r_angle_refined_deg 1.236 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.599 r_dihedral_angle_4_deg 18.934 r_dihedral_angle_3_deg 16.207 r_dihedral_angle_1_deg 6.528 r_scangle_it 3.392 r_mcangle_it 2.673 r_scbond_it 2.261 r_mcbond_it 1.775 r_angle_refined_deg 1.236 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.25 r_nbd_refined 0.201 r_metal_ion_refined 0.177 r_symmetry_hbond_refined 0.164 r_xyhbond_nbd_refined 0.146 r_chiral_restr 0.082 r_symmetry_metal_ion_refined 0.046 r_bond_refined_d 0.009 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5036 Nucleic Acid Atoms Solvent Atoms 289 Heterogen Atoms 89
Software Software Software Name Purpose PXGEN data collection AMoRE phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling