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- PDB-3g04: Crystal structure of the TSH receptor in complex with a thyroid-s... -
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Basic information
Entry | Database: PDB / ID: 3g04 | ||||||
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Title | Crystal structure of the TSH receptor in complex with a thyroid-stimulating autoantibody | ||||||
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![]() | IMMUNE SYSTEM / TSH RECEPTOR / GPCR / THYROID / GRAVES' DISEASE / AUTOIMMUNITY / RECEPTOR-AUTOANTIBODY COMPLEX | ||||||
Function / homology | ![]() thyroid-stimulating hormone signaling pathway / cellular response to glycoprotein / cellular response to thyrotropin-releasing hormone / thyroid-stimulating hormone receptor activity / Hormone ligand-binding receptors / G protein-coupled peptide receptor activity / G protein-coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger / hormone-mediated signaling pathway / adenylate cyclase-activating G protein-coupled receptor signaling pathway / cell-cell signaling ...thyroid-stimulating hormone signaling pathway / cellular response to glycoprotein / cellular response to thyrotropin-releasing hormone / thyroid-stimulating hormone receptor activity / Hormone ligand-binding receptors / G protein-coupled peptide receptor activity / G protein-coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger / hormone-mediated signaling pathway / adenylate cyclase-activating G protein-coupled receptor signaling pathway / cell-cell signaling / signaling receptor activity / positive regulation of cold-induced thermogenesis / G alpha (s) signalling events / basolateral plasma membrane / cell surface receptor signaling pathway / receptor complex / G protein-coupled receptor signaling pathway / positive regulation of cell population proliferation / protein-containing complex binding / cell surface / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Sanders, J. / Chirgadze, D.Y. / Sanders, P. / Baker, S. / Sullivan, A. / Bhardwaja, A. / Bolton, J. / Reeve, M. / Nakatake, N. / Evans, M. ...Sanders, J. / Chirgadze, D.Y. / Sanders, P. / Baker, S. / Sullivan, A. / Bhardwaja, A. / Bolton, J. / Reeve, M. / Nakatake, N. / Evans, M. / Richards, T. / Powell, M. / Miguel, R.N. / Blundell, T.L. / Furmaniak, J. / Smith, B.R. | ||||||
![]() | ![]() Title: Crystal structure of the TSH receptor in complex with a thyroid-stimulating autoantibody Authors: Sanders, J. / Chirgadze, D.Y. / Sanders, P. / Baker, S. / Sullivan, A. / Bhardwaja, A. / Bolton, J. / Reeve, M. / Nakatake, N. / Evans, M. / Richards, T. / Powell, M. / Miguel, R.N. / ...Authors: Sanders, J. / Chirgadze, D.Y. / Sanders, P. / Baker, S. / Sullivan, A. / Bhardwaja, A. / Bolton, J. / Reeve, M. / Nakatake, N. / Evans, M. / Richards, T. / Powell, M. / Miguel, R.N. / Blundell, T.L. / Furmaniak, J. / Smith, B.R. #1: Journal: Lancet / Year: 2003 Title: Human monoclonal thyroid stimulating autoantibody Authors: Sanders, J. / Evans, M. / Premawardhana, L.D.K.E. / Depraetere, H. / Jeffreys, J. / Richards, T. / Furmaniak, J. / Smith, B.R. #2: Journal: Thyroid / Year: 2004 Title: Characteristics of a human monoclonal autoantibody to the thyrotropin receptor: sequence structure and function Authors: Sanders, J. / Jeffreys, J. / Depraetere, H. / Evans, M. / Richards, T. / Kiddie, A. / Brereton, K. / Premawardhana, L.D.K.E. / Chirgadze, D.Y. / Miguel, R.N. / Blundell, T.L. / Furmaniak, J. / Smith, B.R. #3: Journal: Thyroid / Year: 2004 Title: Analysis of the thyrotropin receptor-thyrotropin interaction by comparative modeling Authors: Miguel, R.N. / Sanders, J. / Jeffreys, J. / Depraetere, H. / Evans, M. / Richards, T. / Blundell, T.L. / Rees Smith, B. / Furmaniak, J. #4: ![]() Title: Comparative Modelling of the Thyrotropin Receptor Authors: Miguel, R.N. / Sanders, J. / Blundell, T.L. / Smith, B.R. / Furmaniak, J. #5: Journal: Thyroid / Year: 2006 Title: Effects of TSH receptor mutations on binding and biological activity of monoclonal antibodies and TSH Authors: Sanders, J. / Bolton, J. / Sanders, P. / Jeffreys, J. / Nakatake, N. / Richards, T. / Evans, M. / Kiddie, A. / Summerhayes, S. / Roberts, E. / Miguel, R.N. / Furmaniak, J. / Smith, B.R. #6: Journal: Thyroid / Year: 2007 Title: Molecular interactions between the TSH receptor and a Thyroid-stimulating monoclonal autoantibody Authors: Sanders, J. / Miguel, R.N. / Bolton, J. / Bhardwaja, A. / Sanders, P. / Nakatake, N. / Evans, M. / Furmaniak, J. / Smith, B.R. #7: Journal: J.Mol.Endocrinol. / Year: 2008 Title: FSH and TSH binding to their respective receptors: similarities, differences and implication for glycoprotein hormone specificity Authors: Miguel, R.N. / Sanders, J. / Chirgadze, D.Y. / Blundell, T.L. / Furmaniak, J. / Rees Smith, B. #8: ![]() Title: Thyroid stimulating autoantibody M22 mimics TSH in its binding to the TSH receptor: a comparative structural study of protein-protein interactions Authors: Miguel, R.N. / Sanders, J. / Chirgadze, D.Y. / Furmaniak, J. / Smith, B.R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 152.3 KB | Display | ![]() |
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PDB format | ![]() | 116.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 470.8 KB | Display | ![]() |
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Full document | ![]() | 479.7 KB | Display | |
Data in XML | ![]() | 28.4 KB | Display | |
Data in CIF | ![]() | 40.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1xwdS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
-Antibody , 2 types, 2 molecules AB
#1: Antibody | Mass: 23043.408 Da / Num. of mol.: 1 / Fragment: FAB fragment light chain Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Production host: mouse-human heterohybridoma cell line (others) |
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#2: Antibody | Mass: 24487.438 Da / Num. of mol.: 1 / Fragment: FAB fragment heavy chain Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Production host: mouse-human heterohybridoma cell line (others) |
-Protein / Sugars , 2 types, 7 molecules C![](data/chem/img/NAG.gif)
![](data/chem/img/NAG.gif)
#3: Protein | Mass: 26943.828 Da / Num. of mol.: 1 / Fragment: LEUCINE RICH REPEAT DOMAIN (SEGMENT 22-260) Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
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#4: Sugar | ChemComp-NAG / |
-Non-polymers , 2 types, 294 molecules ![](data/chem/img/ZN.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/HOH.gif)
#5: Chemical | ChemComp-ZN / #6: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.66 Å3/Da / Density % sol: 53.82 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, hanging drop / pH: 6 Details: 8% PEG 8000, 0.1M MES, 0.25M ZINC ACETATE, pH 6.00, VAPOR DIFFUSION, HANGING DROP, temperature 292K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Nov 6, 2006 |
Radiation | Monochromator: SI 111 CHANNEL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 2.55→30 Å / Num. all: 26775 / Num. obs: 25731 / % possible obs: 96.1 % / Observed criterion σ(I): 2.5 / Redundancy: 4.6 % / Biso Wilson estimate: 47.7 Å2 / Rmerge(I) obs: 0.071 / Rsym value: 0.071 / Net I/σ(I): 10.5 |
Reflection shell | Resolution: 2.55→2.61 Å / Redundancy: 4.4 % / Rmerge(I) obs: 0.361 / Rsym value: 0.361 / % possible all: 99.2 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1XWD Resolution: 2.55→26.72 Å / Cor.coef. Fo:Fc: 0.949 / Cor.coef. Fo:Fc free: 0.904 / SU B: 17.888 / SU ML: 0.208 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.665 / ESU R Free: 0.303 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 36 Å2
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Refinement step | Cycle: LAST / Resolution: 2.55→26.72 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.55→2.61 Å / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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