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(-) Description

Title :  RAT TRANSTHYRETIN COMPLEX WITH THYROXINE (T4)
 
Authors :  A. Wojtczak
Date :  06 Apr 01  (Deposition) - 10 Apr 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Transport Protein, Transport Of Thyroid Hormones, Rat Transthyretin, Prealbumin, Thyroxine Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Wojtczak, V. Cody, J. R. Luft, W. Pangborn
Structure Of Rat Transthyretin (Rttr) Complex With Thyroxine At 2. 5 A Resolution: First Non-Biased Insight Into Thyroxine Binding Reveals Different Hormone Orientation In Two Binding Sites.
Acta Crystallogr. , Sect. D V. 57 1061 2001
PubMed-ID: 11468389  |  Reference-DOI: 10.1107/S0907444901007235
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRANSTHYRETIN
    Cellular LocationBLOOD SERUM
    ChainsA, B, C, D
    Organism CommonNORWAY RAT
    Organism ScientificRATTUS NORVEGICUS
    Organism Taxid10116
    Other DetailsTHIS SEQUENCE OCCURS NATURALLY IN RAT;
PURIFIED FROM NATURAL SOURCE (SERUM)
    SynonymPREALBUMIN, TTR, TBPA, ATTR
    TissueBLOOD SERUM

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1T442Ligand/Ion3,5,3',5'-TETRAIODO-L-THYRONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:15 , LEU A:17 , GLU A:54 , ALA A:109 , LEU A:110 , HOH A:1079 , LYS C:15 , GLU C:54 , ALA C:108 , HOH C:1131BINDING SITE FOR RESIDUE T44 A 128
2AC2SOFTWARELYS B:15 , GLU B:54 , ALA B:108 , ALA B:109 , LEU B:110 , HOH B:1076 , HOH B:1085 , HOH B:1133 , HOH B:1134 , LYS D:15 , ALA D:108 , ALA D:109 , HOH D:1132BINDING SITE FOR RESIDUE T44 B 328

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1IE4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1IE4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1IE4)

(-) PROSITE Motifs  (2, 8)

Asymmetric/Biological Unit (2, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TRANSTHYRETIN_1PS00768 Transthyretin signature 1.TTHY_RAT35-50
 
 
 
  4A:15-30
B:15-30
C:15-30
D:15-30
2TRANSTHYRETIN_2PS00769 Transthyretin signature 2.TTHY_RAT125-137
 
 
 
  4A:105-117
B:105-117
C:105-117
D:105-117

(-) Exons   (3, 12)

Asymmetric/Biological Unit (3, 12)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENSRNOT000000221131ENSRNOE00000155027chr18:12406551-1240664898TTHY_RAT1-23230--
1.2ENSRNOT000000221132ENSRNOE00000155619chr18:12407695-12407825131TTHY_RAT24-67444A:8-47
B:8-47
C:8-47
D:8-47
40
40
40
40
1.3ENSRNOT000000221133ENSRNOE00000156091chr18:12410367-12410502136TTHY_RAT67-112464A:47-92
B:47-92
C:47-92
D:47-92
46
46
46
46
1.4ENSRNOT000000221134ENSRNOE00000156567chr18:12413430-12413680251TTHY_RAT113-147354A:93-127
B:93-127
C:93-127
D:93-127
35
35
35
35

(-) 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:120
 aligned with TTHY_RAT | P02767 from UniProtKB/Swiss-Prot  Length:147

    Alignment length:120
                                    37        47        57        67        77        87        97       107       117       127       137       147
             TTHY_RAT    28 SKCPLMVKVLDAVRGSPAVDVAVKVFKKTADGSWEPFASGKTAESGELHGLTTDEKFTEGVYRVELDTKSYWKALGISPFHEYAEVVFTANDSGHRHYTIAALLSPYSYSTTAVVSNPQN 147
               SCOP domains d1ie4a_ A: Transthyretin (synonym: prealbumin)                                                                           SCOP domains
               CATH domains 1ie4A00 A:8-127  [code=2.60.40.180, no name defined]                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeee....ee....eeeeeee.....eeeeeeee.....ee...........eeeeeeeehhhhhhhh.....eeeeeeeeee.......eeeeeeee..eeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------TRANSTHYRETIN_1 --------------------------------------------------------------------------TRANSTHYRETIN---------- PROSITE
           Transcript 1 (1) Exon 1.2  PDB: A:8-47 UniProt: 24-67    ---------------------------------------------Exon 1.4  PDB: A:93-127             Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------Exon 1.3  PDB: A:47-92 UniProt: 67-112        ----------------------------------- Transcript 1 (2)
                 1ie4 A   8 SKCPLMVKVLDAVRGSPAVDVAVKVFKKTADGSWEPFASGKTAESGELHGLTTDEKFTEGVYRVELDTKSYWKALGISPFHEYAEVVFTANDSGHRHYTIAALLSPYSYSTTAVVSNPQN 127
                                    17        27        37        47        57        67        77        87        97       107       117       127

Chain B from PDB  Type:PROTEIN  Length:120
 aligned with TTHY_RAT | P02767 from UniProtKB/Swiss-Prot  Length:147

    Alignment length:120
                                    37        47        57        67        77        87        97       107       117       127       137       147
             TTHY_RAT    28 SKCPLMVKVLDAVRGSPAVDVAVKVFKKTADGSWEPFASGKTAESGELHGLTTDEKFTEGVYRVELDTKSYWKALGISPFHEYAEVVFTANDSGHRHYTIAALLSPYSYSTTAVVSNPQN 147
               SCOP domains d1ie4b_ B: Transthyretin (synonym: prealbumin)                                                                           SCOP domains
               CATH domains 1ie4B00 B:8-127  [code=2.60.40.180, no name defined]                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeee....ee....eeeeeee.....eeeeeeee.....eee..........eeeeeeeehhhhhhh......eeeeeeeeee......eeeeeeeee..eeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------TRANSTHYRETIN_1 --------------------------------------------------------------------------TRANSTHYRETIN---------- PROSITE
           Transcript 1 (1) Exon 1.2  PDB: B:8-47 UniProt: 24-67    ---------------------------------------------Exon 1.4  PDB: B:93-127             Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------Exon 1.3  PDB: B:47-92 UniProt: 67-112        ----------------------------------- Transcript 1 (2)
                 1ie4 B   8 SKCPLMVKVLDAVRGSPAVDVAVKVFKKTADGSWEPFASGKTAESGELHGLTTDEKFTEGVYRVELDTKSYWKALGISPFHEYAEVVFTANDSGHRHYTIAALLSPYSYSTTAVVSNPQN 127
                                    17        27        37        47        57        67        77        87        97       107       117       127

Chain C from PDB  Type:PROTEIN  Length:120
 aligned with TTHY_RAT | P02767 from UniProtKB/Swiss-Prot  Length:147

    Alignment length:120
                                    37        47        57        67        77        87        97       107       117       127       137       147
             TTHY_RAT    28 SKCPLMVKVLDAVRGSPAVDVAVKVFKKTADGSWEPFASGKTAESGELHGLTTDEKFTEGVYRVELDTKSYWKALGISPFHEYAEVVFTANDSGHRHYTIAALLSPYSYSTTAVVSNPQN 147
               SCOP domains d1ie4c_ C: Transthyretin (synonym: prealbumin)                                                                           SCOP domains
               CATH domains 1ie4C00 C:8-127  [code=2.60.40.180, no name defined]                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeee....ee....eeeeeee.....eeeeeeee.....ee...........eeeeeeehhhhhhhhh........eeeeeee......eeeeeeeee..eeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------TRANSTHYRETIN_1 --------------------------------------------------------------------------TRANSTHYRETIN---------- PROSITE
           Transcript 1 (1) Exon 1.2  PDB: C:8-47 UniProt: 24-67    ---------------------------------------------Exon 1.4  PDB: C:93-127             Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------Exon 1.3  PDB: C:47-92 UniProt: 67-112        ----------------------------------- Transcript 1 (2)
                 1ie4 C   8 SKCPLMVKVLDAVRGSPAVDVAVKVFKKTADGSWEPFASGKTAESGELHGLTTDEKFTEGVYRVELDTKSYWKALGISPFHEYAEVVFTANDSGHRHYTIAALLSPYSYSTTAVVSNPQN 127
                                    17        27        37        47        57        67        77        87        97       107       117       127

Chain D from PDB  Type:PROTEIN  Length:120
 aligned with TTHY_RAT | P02767 from UniProtKB/Swiss-Prot  Length:147

    Alignment length:120
                                    37        47        57        67        77        87        97       107       117       127       137       147
             TTHY_RAT    28 SKCPLMVKVLDAVRGSPAVDVAVKVFKKTADGSWEPFASGKTAESGELHGLTTDEKFTEGVYRVELDTKSYWKALGISPFHEYAEVVFTANDSGHRHYTIAALLSPYSYSTTAVVSNPQN 147
               SCOP domains d1ie4d_ D: Transthyretin (synonym: prealbumin)                                                                           SCOP domains
               CATH domains 1ie4D00 D:8-127  [code=2.60.40.180, no name defined]                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeee....ee....eeeeeee.....eeeeeeee.....ee...........eeeeeeehhhhhhhh......eeeeeeeeee......eeeeeeee...eeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------TRANSTHYRETIN_1 --------------------------------------------------------------------------TRANSTHYRETIN---------- PROSITE
           Transcript 1 (1) Exon 1.2  PDB: D:8-47 UniProt: 24-67    ---------------------------------------------Exon 1.4  PDB: D:93-127             Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------Exon 1.3  PDB: D:47-92 UniProt: 67-112        ----------------------------------- Transcript 1 (2)
                 1ie4 D   8 SKCPLMVKVLDAVRGSPAVDVAVKVFKKTADGSWEPFASGKTAESGELHGLTTDEKFTEGVYRVELDTKSYWKALGISPFHEYAEVVFTANDSGHRHYTIAALLSPYSYSTTAVVSNPQN 127
                                    17        27        37        47        57        67        77        87        97       107       117       127

   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  (1, 4)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1IE4)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (TTHY_RAT | P02767)
molecular function
    GO:0005179    hormone activity    The action characteristic of a hormone, any substance formed in very small amounts in one specialized organ or group of cells and carried (sometimes in the bloodstream) to another organ or group of cells in the same organism, upon which it has a specific regulatory action. The term was originally applied to agents with a stimulatory physiological action in vertebrate animals (as opposed to a chalone, which has a depressant action). Usage is now extended to regulatory compounds in lower animals and plants, and to synthetic substances having comparable effects; all bind receptors and trigger some biological process.
    GO:0042562    hormone binding    Interacting selectively and non-covalently with any hormone, naturally occurring substances secreted by specialized cells that affect the metabolism or behavior of other cells possessing functional receptors for the hormone.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0046982    protein heterodimerization activity    Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
    GO:0070324    thyroid hormone binding    Interacting selectively and non-covalently with thyroxine (T4) or triiodothyronine (T3), tyrosine-based hormones produced by the thyroid gland.
biological process
    GO:0042572    retinol metabolic process    The chemical reactions and pathways involving retinol, one of the three compounds that makes up vitamin A.
    GO:0042403    thyroid hormone metabolic process    The chemical reactions and pathways involving any of the compounds secreted by the thyroid gland, largely thyroxine and triiodothyronine.
    GO:0070327    thyroid hormone transport    The directed movement of thyroid hormone into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    GO:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.

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 Related Entries

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

UniProtKB/Swiss-Prot
        TTHY_RAT | P027671gke 1kgi 1kgj 1rvs 2m5k 2m5m 3zpk

(-) Related Entries Specified in the PDB File

1gke RAT TRANSTHYRETIN
1ict MONOCLINIC FORM OF HUMAN TRANSTHYRETIN COMPEXED WITH THYROXINE (T4)
2rox TRANSTHYRETIN (ALSO CALLED PREALBUMIN) COMPLEX WITH THYROXINE (T4)