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(-) Description

Title :  CRYSTAL STRUCTURE OF THE TSH RECEPTOR IN COMPLEX WITH A THYROID-STIMULATING AUTOANTIBODY
 
Authors :  J. Sanders, D. Y. Chirgadze, P. Sanders, S. Baker, A. Sullivan, A. Bhard J. Bolton, M. Reeve, N. Nakatake, M. Evans, T. Richards, M. Powell, R. N T. L. Blundell, J. Furmaniak, B. R. Smith
Date :  27 Jan 09  (Deposition) - 04 Aug 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.55
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Tsh Receptor, Gpcr, Thyroid, Graves' Disease, Autoimmunity, Receptor- Autoantibody Complex, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Sanders, D. Y. Chirgadze, P. Sanders, S. Baker, A. Sullivan, A. Bhardwaja, J. Bolton, M. Reeve, N. Nakatake, M. Evans, T. Richards, M. Powell, R. N. Miguel, T. L. Blundell, J. Furmaniak, B. R. Smith
Crystal Structure Of The Tsh Receptor In Complex With A Thyroid-Stimulating Autoantibody
Thyroid V. 17 395 2007
PubMed-ID: 17542669  |  Reference-DOI: 10.1089/THY.2007.0034
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HUMAN THYROID STIMULATING AUTOANTIBODY M22 LIGHT CHAIN
    ChainsA
    EngineeredYES
    Expression SystemMOUSE-HUMAN HETEROHYBRIDOMA CELL LINE
    Expression System Taxid37965
    FragmentFAB FRAGMENT LIGHT CHAIN
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
 
Molecule 2 - HUMAN THYROID STIMULATING AUTOANTIBODY M22 HEAVY CHAIN
    ChainsB
    EngineeredYES
    Expression SystemMOUSE-HUMAN HETEROHYBRIDOMA CELL LINE
    Expression System Taxid37965
    FragmentFAB FRAGMENT HEAVY CHAIN
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
 
Molecule 3 - THYROTROPIN RECEPTOR
    ChainsC
    EngineeredYES
    Expression SystemTRICHOPLUSIA NI
    Expression System StrainHIGH FIVE
    Expression System Taxid7111
    Expression System Vector TypeBACULOVIRUS
    FragmentLEUCINE RICH REPEAT DOMAIN (SEGMENT 22-260)
    GeneTSHR
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymTHYROID-STIMULATING HORMONE RECEPTOR, TSH-R

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 11)

Asymmetric/Biological Unit (2, 11)
No.NameCountTypeFull Name
1NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE
2ZN5Ligand/IonZINC ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR A:2 , ASN A:26 , SER A:27 , SER A:27A , SER A:94 , LEU A:95BINDING SITE FOR RESIDUE NAG A 213
02AC2SOFTWAREHIS A:188BINDING SITE FOR RESIDUE ZN A 304
03AC3SOFTWAREASP A:95ABINDING SITE FOR RESIDUE ZN A 305
04AC4SOFTWAREHOH A:318 , ASN C:170 , GLN C:173 , ASN C:198BINDING SITE FOR RESIDUE NAG C 1
05AC5SOFTWAREASN C:177 , GLU C:178BINDING SITE FOR RESIDUE NAG C 2
06AC6SOFTWAREASN C:99BINDING SITE FOR RESIDUE NAG C 3
07AC7SOFTWAREVAL C:87 , ASN C:113BINDING SITE FOR RESIDUE NAG C 5
08AC8SOFTWAREPRO C:52 , SER C:53 , ASN C:77BINDING SITE FOR RESIDUE NAG C 6
09AC9SOFTWAREHOH B:257 , HIS C:63BINDING SITE FOR RESIDUE ZN C 301
10BC1SOFTWAREHIS C:70 , GLU C:93 , HIS C:95 , HOH C:274BINDING SITE FOR RESIDUE ZN C 302
11BC2SOFTWAREASP C:118 , ASP C:120BINDING SITE FOR RESIDUE ZN C 303

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1A:23 -A:88
2A:134 -A:193
3B:22 -B:92
4B:140 -B:196
5C:31 -C:41

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Tyr A:140 -Pro A:141
2Phe B:146 -Pro B:147
3Glu B:148 -Pro B:149
4Gly C:227 -Pro C:228

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (11, 11)

Asymmetric/Biological Unit (11, 11)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_055925E34KTSHR_HUMANPolymorphism45499704CE34K
02UniProtVAR_003564D36HTSHR_HUMANPolymorphism61747482CD36H
03UniProtVAR_011519C41STSHR_HUMANDisease (CHNG1)  ---CC41S
04UniProtVAR_003565P52TTSHR_HUMANPolymorphism2234919CP52T
05UniProtVAR_011520R109QTSHR_HUMANDisease (CHNG1)  ---CR109Q
06UniProtVAR_011521P162ATSHR_HUMANDisease (CHNG1)121908863CP162A
07UniProtVAR_011522I167NTSHR_HUMANDisease (CHNG1)  ---CI167N
08UniProtVAR_003566K183RTSHR_HUMANDisease (HTFG)  ---CK183R
09UniProtVAR_003567F197ITSHR_HUMANUnclassified  ---CF197I
10UniProtVAR_003568D219ETSHR_HUMANUnclassified  ---CD219E
11UniProtVAR_021495L252PTSHR_HUMANDisease (CHNG1)  ---CL252P

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3G04)

(-) Exons   (9, 9)

Asymmetric/Biological Unit (9, 9)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1bENST000002981711bENSE00001274344chr14:81421869-81422194326TSHR_HUMAN1-57571C:30-5728
1.2bENST000002981712bENSE00001135626chr14:81528492-8152856372TSHR_HUMAN57-81251C:57-8125
1.3ENST000002981713ENSE00001092839chr14:81534598-8153467275TSHR_HUMAN81-106261C:81-10626
1.4ENST000002981714ENSE00001135605chr14:81554298-8155437275TSHR_HUMAN106-131261C:106-13126
1.5ENST000002981715ENSE00001315993chr14:81557413-8155748775TSHR_HUMAN131-156261C:131-15626
1.6ENST000002981716ENSE00001092852chr14:81558875-8155895278TSHR_HUMAN156-182271C:156-18227
1.7ENST000002981717ENSE00001311920chr14:81562983-8156305169TSHR_HUMAN182-205241C:182-20524
1.8ENST000002981718ENSE00001135568chr14:81574719-8157479678TSHR_HUMAN205-231271C:205-23127
1.10ENST0000029817110ENSE00001318726chr14:81606023-81606211189TSHR_HUMAN231-294641C:231-25727
1.11aENST0000029817111aENSE00001328054chr14:81609284-816126463363TSHR_HUMAN294-7644710--

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:212
                                                                                                                                                                                                                                                     
               SCOP domains d3g04a1 A:1-107 automated matches                                                                              d3g04a2 A:108-208 automated matches                                                                   SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------3g04A02 A:108-208 Immunoglobulins                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeee.....eeeeee...........eeeee......eeee.............eeeeee..eeeeee...hhhhh.eeeeeeee....eeee...eeeee........eeeee..hhhhhhh..eeeeeeeeee.....eeeeee..eee...eee...ee.....eeeeeeeeehhhhhhhh..eeeeeee..eeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3g04 A    1 LTVLTQPPSVSGAPRQRVTISCSGNSSNIGNNAVNWYQQLPGKAPKLLIYYDDQLPSGVSDRFSGSRSGTSASLAIRGLQSEDEADYYCTSWDDSLDSQLFGGGTRLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAP  208
                                    11        21      ||29        39        49        59        69        79        89      ||97      106A       116       126       136       146       156       166       176       186       196       206  
                                    9|              27A|                                                                  95A|        106A                                                                                                      
                                    11               27B                                                                   95B                                                                                                                  

Chain B from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                        
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3g04B01 B:1-113 Immunoglobulins                                                                                          3g04B02 B:114-213 Immunoglobulins                                                              CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhheeeeeee.....eeeeeee......eee........eeeeehhh.eeeeee...hhhhheeeeeeee........eeee...eeeee........eeeee....eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhh.....eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3g04 B    1 QVQLVQSGAEVKKPGESLKISCRGSGYRFTSYWINWVRQLPGKGLEWMGRIDPTDSYTNYSPSFKGHVTVSADKSINTAYLQWSSLKASDTGMYYCARLEPGYSSTWSVNWGQGTLVTVSSASTKGPSVFPLAPSGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP  213
                                    10        20        30        40        50  |     59        69        79   |||  86        96    |||102       112       122    || 138       148       158       168       178       188       198       208     
                                                                              52A                            82A||               100A|||                        127|                                                                               
                                                                                                              82B|                100B||                         134                                                                               
                                                                                                               82C                 100C|                                                                                                           
                                                                                                                                    100D                                                                                                           

Chain C from PDB  Type:PROTEIN  Length:228
 aligned with TSHR_HUMAN | P16473 from UniProtKB/Swiss-Prot  Length:764

    Alignment length:228
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249        
          TSHR_HUMAN     30 ECHQEEDFRVTCKDIQRIPSLPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSKGLEHLKELIARNT  257
               SCOP domains d3g04c_ C: automated matches                                                                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee...eeee..............eeeee.....ee............eeeee......ee....ee......eeeeeee....ee....ee......eeeeeee................eeeeeee......ee...........eeeee.......ee.........eeeee........ee.............eee..................eee.... Sec.struct. author
                 SAPs(SNPs) ----K-H----S----------T--------------------------------------------------------Q----------------------------------------------------A----N---------------R-------------I---------------------E--------------------------------P----- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.1b  PDB: C:30-57     -----------------------Exon 1.3  PDB: C:81-106   ------------------------Exon 1.5  PDB: C:131-156  -------------------------Exon 1.7  PDB: C:182-205-------------------------Exon 1.10  PDB: C:231-257   Transcript 1 (1)
           Transcript 1 (2) ---------------------------Exon 1.2b  PDB: C:57-81  ------------------------Exon 1.4  PDB: C:106-131  ------------------------Exon 1.6  PDB: C:156-182   ----------------------Exon 1.8  PDB: C:205-231   -------------------------- Transcript 1 (2)
                3g04 C   30 ECHQEEDFRVTCKDIQRIPSLPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSKGLEHLKELIARNT  257
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249        

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 3)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3G04)

(-) Gene Ontology  (21, 21)

Asymmetric/Biological Unit(hide GO term definitions)
Chain C   (TSHR_HUMAN | P16473)
molecular function
    GO:0008528    G-protein coupled peptide receptor activity    Combining with a peptide and transmitting the signal across the membrane by activating an associated G-protein; promotes the exchange of GDP for GTP on the alpha subunit of a heterotrimeric G-protein complex.
    GO:0004930    G-protein coupled receptor activity    Combining with an extracellular signal and transmitting the signal across the membrane by activating an associated G-protein; promotes the exchange of GDP for GTP on the alpha subunit of a heterotrimeric G-protein complex.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0016500    protein-hormone receptor activity    Combining with a protein hormone to initiate a change in cell activity.
    GO:0004871    signal transducer activity    Conveys a signal across a cell to trigger a change in cell function or state. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response.
    GO:0004996    thyroid-stimulating hormone receptor activity    Combining with thyroid-stimulating hormone to initiate a change in cell activity.
biological process
    GO:0007186    G-protein coupled receptor signaling pathway    A series of molecular signals that proceeds with an activated receptor promoting the exchange of GDP for GTP on the alpha-subunit of an associated heterotrimeric G-protein complex. The GTP-bound activated alpha-G-protein then dissociates from the beta- and gamma-subunits to further transmit the signal within the cell. The pathway begins with receptor-ligand interaction, or for basal GPCR signaling the pathway begins with the receptor activating its G protein in the absence of an agonist, and ends with regulation of a downstream cellular process, e.g. transcription. The pathway can start from the plasma membrane, Golgi or nuclear membrane (PMID:24568158 and PMID:16902576).
    GO:0007187    G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger    The series of molecular signals generated as a consequence of a G-protein coupled receptor binding to its physiological ligand, where the pathway proceeds with activation or inhibition of a nucleotide cyclase activity and a subsequent change in the concentration of a cyclic nucleotide.
    GO:0007190    activation of adenylate cyclase activity    Any process that initiates the activity of the inactive enzyme adenylate cyclase.
    GO:0007189    adenylate cyclase-activating G-protein coupled receptor signaling pathway    The series of molecular signals generated as a consequence of a G-protein coupled receptor binding to its physiological ligand, where the pathway proceeds through activation of adenylyl cyclase activity and a subsequent increase in the concentration of cyclic AMP (cAMP).
    GO:0007267    cell-cell signaling    Any process that mediates the transfer of information from one cell to another. This process includes signal transduction in the receiving cell and, where applicable, release of a ligand and any processes that actively facilitate its transport and presentation to the receiving cell. Examples include signaling via soluble ligands, via cell adhesion molecules and via gap junctions.
    GO:0009755    hormone-mediated signaling pathway    A series of molecular signals mediated by the detection of a hormone.
    GO:0007399    nervous system development    The process whose specific outcome is the progression of nervous tissue over time, from its formation to its mature state.
    GO:0008284    positive regulation of cell proliferation    Any process that activates or increases the rate or extent of cell proliferation.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
    GO:0038194    thyroid-stimulating hormone signaling pathway    The series of molecular signals generated as a consequence of thyroid-stimulating hormone (thyrotropin) binding to a cell surface receptor. The pathway proceeds with the receptor transmitting the signal to a heterotrimeric G-protein complex and ends with regulation of a downstream cellular process, e.g. transcription.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0005887    integral component of plasma membrane    The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
    GO:0043235    receptor complex    Any protein complex that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        TSHR_HUMAN | P164731xum 2xwt

(-) Related Entries Specified in the PDB File

1xwd CRYSTAL STRUCTURE OF HUMAN FOLLICLE STIMULATING HORMONE COMPLEXED WITH ITS RECEPTOR