1SN2 - JenaLib

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Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURE OF SEA BREAM TRANSTHYRETIN AT 1.90A RESOLUTION

Authors :   T. Eneqvist, E. Lundberg, A. Karlsson, S. Huang, C. R. Cantos, D. M. Powe A. E. Sauer-Eriksson

Date :   10 Mar 04 (Deposition) - 03 Aug 04 (Release) - 30 Apr 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

Chains :   Asym./Biol. Unit : A,B,C,D

Keywords :   Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Eneqvist, E. Lundberg, A. Karlsson, S. Huang, C. R. Santos, D. M. Power, A. E. Sauer-Eriksson
High Resolution Crystal Structures Of Piscine Transthyretin Reveal Different Binding Modes For Triiodothyronine And Thyroxine.
J. Biol. Chem. V. 279 26411 2004
PubMed-ID: 15082720 | Reference-DOI: 10.1074/JBC.M313553200

Molecule 1 - TRANSTHYRETIN
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Common	:	GILTHEAD SEABREAM
	Organism Scientific	:	SPARUS AURATA
	Organism Taxid	:	8175

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:102 , SER A:123 , SER A:124 , HOH A:721 , ARG B:103	BINDING SITE FOR RESIDUE SO4 A 701

(no "SS Bond" information available for 1SN2)

(no "Cis Peptide Bond" information available for 1SN2)

(no "SAP(SNP)/Variant" information available for 1SN2)

(no "PROSITE Motif" information available for 1SN2)

(no "Exon" information available for 1SN2)

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:118
 aligned with Q9PTT3_SPAAU | Q9PTT3 from UniProtKB/TrEMBL  Length:151

    Alignment length:118
                                    43        53        63        73        83        93       103       113       123       133       143        
         Q9PTT3_SPAAU    34 CPLMVKILDAVKGTPAGSVALKVSQKTADGGWTQIATGVTDATGEIHNLITEQQFPAGVYRVEFDTKAYWTNQGSTPFHEVAEVVFDAHPEGHRHYTLALLLSPFSYTTTAVVSSVRE 151
               SCOP domains d1sn2a_ A: Transthyretin (synonym: prealbumin)                                                                         SCOP domains
               CATH domains 1sn2A00 A:10-127  [code=2.60.40.180, no name defined]                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....ee....eeeeeee.....eeeeeeee..................eeeeeeehhhhhhhhh.....eeeeeeeeee.......eeeeeeee..eeeeeee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 1sn2 A  10 CPLMVKILDAVKGTPAGSVALKVSQKTADGGWTQIATGVTDATGEIHNLITEQQFPAGVYRVEFDTKAYWTNQGSTPFHEVAEVVFDAHPEGHRHYTLALLLSPFSYTTTAVVSSVHE 127
                                    19        29        39        49        59        69        79        89        99       109       119

Chain B from PDB  Type:PROTEIN  Length:116
 aligned with Q9PTT3_SPAAU | Q9PTT3 from UniProtKB/TrEMBL  Length:151

    Alignment length:116
                                    43        53        63        73        83        93       103       113       123       133       143      
         Q9PTT3_SPAAU    34 CPLMVKILDAVKGTPAGSVALKVSQKTADGGWTQIATGVTDATGEIHNLITEQQFPAGVYRVEFDTKAYWTNQGSTPFHEVAEVVFDAHPEGHRHYTLALLLSPFSYTTTAVVSSV 149
               SCOP domains d1sn2b_ B: Transthyretin (synonym: prealbumin)                                                                       SCOP domains
               CATH domains 1sn2B00 B:10-125  [code=2.60.40.180, no name defined]                                                                CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....ee....eeeeeee.....eeeeeeee...........hhhhh..eeeeeeehhhhhhhhh.....eeeeeeeeee......eeeeeeeee..eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 1sn2 B  10 CPLMVKILDAVKGTPAGSVALKVSQKTADGGWTQIATGVTDATGEIHNLITEQQFPAGVYRVEFDTKAYWTNQGSTPFHEVAEVVFDAHPEGHRHYTLALLLSPFSYTTTAVVSSV 125
                                    19        29        39        49        59        69        79        89        99       109       119

Chain C from PDB  Type:PROTEIN  Length:115
 aligned with Q9PTT3_SPAAU | Q9PTT3 from UniProtKB/TrEMBL  Length:151

    Alignment length:115
                                    44        54        64        74        84        94       104       114       124       134       144     
         Q9PTT3_SPAAU    35 PLMVKILDAVKGTPAGSVALKVSQKTADGGWTQIATGVTDATGEIHNLITEQQFPAGVYRVEFDTKAYWTNQGSTPFHEVAEVVFDAHPEGHRHYTLALLLSPFSYTTTAVVSSV 149
               SCOP domains d1sn2c_ C: Transthyretin (synonym: prealbumin)                                                                      SCOP domains
               CATH domains 1sn2C00 C:11-125  [code=2.60.40.180, no name defined]                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....ee....eeeeeee.....eeeeeeee..................eeeeeeehhhhhhhhh.....eeeeeeeeee.......eeeeeeee..eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 1sn2 C  11 PLMVKILDAVKGTPAGSVALKVSQKTADGGWTQIATGVTDATGEIHNLITEQQFPAGVYRVEFDTKAYWTNQGSTPFHEVAEVVFDAHPEGHRHYTLALLLSPFSYTTTAVVSSV 125
                                    20        30        40        50        60        70        80        90       100       110       120

Chain D from PDB  Type:PROTEIN  Length:114
 aligned with Q9PTT3_SPAAU | Q9PTT3 from UniProtKB/TrEMBL  Length:151

    Alignment length:114
                                    43        53        63        73        83        93       103       113       123       133       143    
         Q9PTT3_SPAAU    34 CPLMVKILDAVKGTPAGSVALKVSQKTADGGWTQIATGVTDATGEIHNLITEQQFPAGVYRVEFDTKAYWTNQGSTPFHEVAEVVFDAHPEGHRHYTLALLLSPFSYTTTAVVS 147
               SCOP domains d1sn2d_ D: Transthyretin (synonym: prealbumin)                                                                     SCOP domains
               CATH domains 1sn2D00 D:10-123  [code=2.60.40.180, no name defined]                                                              CATH domains
           Pfam domains (1) Transthyretin-1sn2D01 D:10-121                                                                                  -- Pfam domains (1)
           Pfam domains (2) Transthyretin-1sn2D02 D:10-121                                                                                  -- Pfam domains (2)
           Pfam domains (3) Transthyretin-1sn2D03 D:10-121                                                                                  -- Pfam domains (3)
           Pfam domains (4) Transthyretin-1sn2D04 D:10-121                                                                                  -- Pfam domains (4)
         Sec.struct. author ..eeeeeee....ee....eeeeeee.....eeeeeeee...........hhhhh..eeeeeeehhhhhhhhhh.......eeeeeee......eeeeeeeee..eeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 1sn2 D  10 CPLMVKILDAVKGTPAGSVALKVSQKTADGGWTQIATGVTDATGEIHNLITEQQFPAGVYRVEFDTKAYWTNQGSTPFHEVAEVVFDAHPEGHRHYTLALLLSPFSYTTTAVVS 123
                                    19        29        39        49        59        69        79        89        99       109       119

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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Prealbumin-like (433)

Superfamily: Transthyretin (synonym: prealbumin) (211)

Family: Transthyretin (synonym: prealbumin) (198)

Protein domain: Transthyretin (synonym: prealbumin) (194)

Gilthead seabream (Sparus aurata) [TaxId: 8175] (4)

1a	d1sn2a_	A:
1b	d1sn2b_	B:
1c	d1sn2c_	C:
1d	d1sn2d_	D:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Immunoglobulin-like (3897)

Homologous Superfamily: [code=2.60.40.180, no name defined] (150)

Gilthead seabream (Sparus aurata) (4)

1a	1sn2B00	B:10-125
1b	1sn2C00	C:11-125
1c	1sn2D00	D:10-123
1d	1sn2A00	A:10-127

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Transthyretin (88)

Family: Transthyretin (45)

Sparus aurata (Gilthead sea bream) (4)

1a	Transthyretin-1sn2D01	D:10-121
1b	Transthyretin-1sn2D02	D:10-121
1c	Transthyretin-1sn2D03	D:10-121
1d	Transthyretin-1sn2D04	D:10-121

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (Q9PTT3_SPAAU | Q9PTT3)

molecular function
	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: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.
cellular component
	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.

Asymmetric/Biological Unit
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Description

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Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (0, 0)

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