2CEO - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

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Biological Unit 2 (Jmol Viewer)

Title :   THYROXINE-BINDING GLOBULIN COMPLEX WITH THYROXINE

Authors :   A. Zhou, Z. Wei, R. J. Read, R. W. Carrell

Date :   08 Feb 06 (Deposition) - 14 Aug 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

Keywords :   Transport, Thyroxine-Binding Globulin, Serpin, Hormone Transport, Thyroxine, Disease Mutation, Glycoprotein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Zhou, Z. Wei, R. J. Read, R. W. Carrell
Structural Mechanism For The Carriage And Release Of Thyroxine In The Blood.
Proc. Natl. Acad. Sci. Usa V. 103 13321 2006
PubMed-ID: 16938877 | Reference-DOI: 10.1073/PNAS.0604080103

Molecule 1 - THYROXINE-BINDING GLOBULIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	B121 STAR (DE3)
	Expression System Taxid	:	562
	Expression System Vector	:	PET16B
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	T4-BINDING GLOBULIN
	Tissue	:	BLOOD

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	GOL	2	Ligand/Ion	GLYCEROL
2	T44	2	Ligand/Ion	3,5,3',5'-TETRAIODO-L-THYRONINE

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	T44	1	Ligand/Ion	3,5,3',5'-TETRAIODO-L-THYRONINE

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	T44	1	Ligand/Ion	3,5,3',5'-TETRAIODO-L-THYRONINE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:23 , ALA A:27 , LEU A:246 , LEU A:269 , ASN A:273 , ARG A:378 , SER B:204 , THR B:212 , GLN B:214 , HOH B:2008	BINDING SITE FOR RESIDUE T44 A1395
2	AC2	SOFTWARE	SER A:204 , THR A:212 , LEU B:246 , LEU B:269 , ASN B:273 , ARG B:378	BINDING SITE FOR RESIDUE T44 B1395
3	AC3	SOFTWARE	ILE A:25 , PHE A:29 , ASN A:32 , THR A:75 , GLY A:77	BINDING SITE FOR RESIDUE GOL A1396
4	AC4	SOFTWARE	PHE B:29 , ASN B:32 , THR B:75 , GLY B:77	BINDING SITE FOR RESIDUE GOL B1396

(no "SS Bond" information available for 2CEO)

(no "Cis Peptide Bond" information available for 2CEO)

Asymmetric Unit (9, 18)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_007102	S	43	T	THBG_HUMAN	Polymorphism	72554662	A/B	S	23	T
2	UniProt	VAR_007103	I	116	N	THBG_HUMAN	Polymorphism	28933689	A/B	I	96	N
3	UniProt	VAR_007104	A	133	P	THBG_HUMAN	Polymorphism	28933688	A/B	A	113	P
4	UniProt	VAR_007105	D	191	N	THBG_HUMAN	Polymorphism	1050086	A/B	D	171	N
5	UniProt	VAR_007106	A	211	T	THBG_HUMAN	Polymorphism	2234036	A/B	A	191	T
6	UniProt	VAR_007107	L	247	P	THBG_HUMAN	Polymorphism	28937312	A/B	L	227	P
7	UniProt	VAR_007108	L	303	F	THBG_HUMAN	Polymorphism	1804495	A/B	L	283	F
8	UniProt	VAR_007109	H	351	Y	THBG_HUMAN	Polymorphism	72554659	A/B	H	331	Y
9	UniProt	VAR_007110	P	383	L	THBG_HUMAN	Polymorphism	72554658	A/B	P	363	L

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

Biological Unit 1 (9, 9)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_007102	S	43	T	THBG_HUMAN	Polymorphism	72554662	A	S	23	T
2	UniProt	VAR_007103	I	116	N	THBG_HUMAN	Polymorphism	28933689	A	I	96	N
3	UniProt	VAR_007104	A	133	P	THBG_HUMAN	Polymorphism	28933688	A	A	113	P
4	UniProt	VAR_007105	D	191	N	THBG_HUMAN	Polymorphism	1050086	A	D	171	N
5	UniProt	VAR_007106	A	211	T	THBG_HUMAN	Polymorphism	2234036	A	A	191	T
6	UniProt	VAR_007107	L	247	P	THBG_HUMAN	Polymorphism	28937312	A	L	227	P
7	UniProt	VAR_007108	L	303	F	THBG_HUMAN	Polymorphism	1804495	A	L	283	F
8	UniProt	VAR_007109	H	351	Y	THBG_HUMAN	Polymorphism	72554659	A	H	331	Y
9	UniProt	VAR_007110	P	383	L	THBG_HUMAN	Polymorphism	72554658	A	P	363	L

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

Biological Unit 2 (9, 9)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_007102	S	43	T	THBG_HUMAN	Polymorphism	72554662	B	S	23	T
2	UniProt	VAR_007103	I	116	N	THBG_HUMAN	Polymorphism	28933689	B	I	96	N
3	UniProt	VAR_007104	A	133	P	THBG_HUMAN	Polymorphism	28933688	B	A	113	P
4	UniProt	VAR_007105	D	191	N	THBG_HUMAN	Polymorphism	1050086	B	D	171	N
5	UniProt	VAR_007106	A	211	T	THBG_HUMAN	Polymorphism	2234036	B	A	191	T
6	UniProt	VAR_007107	L	247	P	THBG_HUMAN	Polymorphism	28937312	B	L	227	P
7	UniProt	VAR_007108	L	303	F	THBG_HUMAN	Polymorphism	1804495	B	L	283	F
8	UniProt	VAR_007109	H	351	Y	THBG_HUMAN	Polymorphism	72554659	B	H	331	Y
9	UniProt	VAR_007110	P	383	L	THBG_HUMAN	Polymorphism	72554658	B	P	363	L

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

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SERPIN	PS00284	Serpins signature.	THBG_HUMAN	385-395	2	A:365-375 B:365-375

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SERPIN	PS00284	Serpins signature.	THBG_HUMAN	385-395	1	A:365-375 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SERPIN	PS00284	Serpins signature.	THBG_HUMAN	385-395	1	- B:365-375

Asymmetric Unit (4, 8)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000372563	1	ENSE00001458103	X:105282729-105282689	41	THBG_HUMAN	-	0	0	-	-
1.2b	ENST00000372563	2b	ENSE00001458102	X:105281066-105280428	639	THBG_HUMAN	1-208	208	2	A:20-188 B:20-188	169 169
1.3a	ENST00000372563	3a	ENSE00000840356	X:105279376-105279103	274	THBG_HUMAN	208-299	92	2	A:188-279 B:188-279	92 92
1.4	ENST00000372563	4	ENSE00000840355	X:105278373-105278226	148	THBG_HUMAN	299-348	50	2	A:279-328 B:279-328	50 50
1.5b	ENST00000372563	5b	ENSE00000840354	X:105277694-105277197	498	THBG_HUMAN	349-415	67	2	A:329-394 (gaps) B:329-394 (gaps)	66 66

Asymmetric 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:367
 aligned with THBG_HUMAN | P05543 from UniProtKB/Swiss-Prot  Length:415

    Alignment length:375
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409     
           THBG_HUMAN    40 YKMSSINADFAFNLYRRFTVETPDKNIFFSPVSISAALVMLSFGACCSTQTEIVETLGFNLTDTPMVEIQHGFQHLICSLNFPKKELELQIGNALFIGKHLKPLAKFLNDVKTLYETEVFSTDFSNISAAKQEINSHVEMQTKGKVVGLIQDLKPNTIMVLVNYIHFKAQWANPFDPSKTEDSSSFLIDKTTTVQVPMMHQMEQYYHLVDMELNCTVLQMDYSKNALALFVLPKEGQMESVEAAMSSKTLKKWNRLLQKGWVDLFVPKFSISATYDLGATLLKMGIQHAYSENADFSGLTEDNGLKLSNAAHKAVLHIGEKGTEAAAVPEVELSDQPENTFLHPIIQIDRSFMLLILERSTRSILFLGKVVNPTE 414
               SCOP domains d2ceoa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 2ceoA01 A:20-190,A:287-340 Antithrombin, subunit I, domain 2                                                                                                               2ceoA02 A:191-286,A:341-394 Alpha-1-antitrypsin, domain 1                                       2ceoA01 A:20-190,A:287-340                            2ceoA02 A        :191-286,A:341-394                    CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhh....eeehhhhhhhhhhhhhhh.hhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh.....eeeeeeeeeeee.....hhhhhhhhhhhhheeeeee...hhhhhhhhhhhhhhhhh................eeeeeeeeeee......hhhhheeeeeee.....eeeeeeeeeeeeeeeeee....eeeeeee....eeeeeeee...hhhhhhhhhhhhhhhhhhhhheeeeeeeeee.eeeeeeeehhhhhhhhh.......................eeeeeeeeee............--------......eee....eeeeeee....eeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ---T------------------------------------------------------------------------N----------------P---------------------------------------------------------N-------------------T-----------------------------------P-------------------------------------------------------F-----------------------------------------------Y-------------------------------L------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SERPIN     ------------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: A:20-188 UniProt: 1-208 [INCOMPLETE]                                                                                                                     ------------------------------------------------------------------------------------------Exon 1.4  PDB: A:279-328 UniProt: 299-348         Exon 1.5b  PDB: A:329-394 (gaps) UniProt: 349-415 [INCOMPLETE]     Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.3a  PDB: A:188-279 UniProt: 208-299                                                  ------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                 2ceo A  20 YKMSSINADFAFNLYRRFTVETPDKNIFFSPVSISAALVMLSFGACCSTQTEIVETLGFNLTDTPMVEIQHGFQHLICSLNFPKKELELQIGNALFIGKHLKPLAKFLNDVKTLYETEVFSTDFSNISAAKQEINSHVEMQTKGKVVGLIQDLKPNTIMVLVNYIHFKAQWANPFDPSKTEDSSSFLIDKTTTVQVPMMHQMEQYYHLVDMELNCTVLQMDYSKNALALFVLPKEGQMESVEAAMSSKTLKKWNRLLQKGWVDLFVPKFSISATYDLGATLLKMGIQHAYSENADFSGLTEDNGLKLSNAAHKAVLHIGEKGTEAAAVPE--------NTFLHPIIQIDRSFMLLILERSTRSILFLGKVVNPTE 394
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389     
                                                                                                                                                                                                                                                                                                                                                                   349      358

Chain B from PDB  Type:PROTEIN  Length:367
 aligned with THBG_HUMAN | P05543 from UniProtKB/Swiss-Prot  Length:415

    Alignment length:375
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409     
           THBG_HUMAN    40 YKMSSINADFAFNLYRRFTVETPDKNIFFSPVSISAALVMLSFGACCSTQTEIVETLGFNLTDTPMVEIQHGFQHLICSLNFPKKELELQIGNALFIGKHLKPLAKFLNDVKTLYETEVFSTDFSNISAAKQEINSHVEMQTKGKVVGLIQDLKPNTIMVLVNYIHFKAQWANPFDPSKTEDSSSFLIDKTTTVQVPMMHQMEQYYHLVDMELNCTVLQMDYSKNALALFVLPKEGQMESVEAAMSSKTLKKWNRLLQKGWVDLFVPKFSISATYDLGATLLKMGIQHAYSENADFSGLTEDNGLKLSNAAHKAVLHIGEKGTEAAAVPEVELSDQPENTFLHPIIQIDRSFMLLILERSTRSILFLGKVVNPTE 414
               SCOP domains d2ceob_ B: automated matches                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 2ceoB01 B:20-190,B:287-340 Antithrombin, subunit I, domain 2                                                                                                               2ceoB02 B:191-286,B:341-394 Alpha-1-antitrypsin, domain 1                                       2ceoB01 B:20-190,B:287-340                            2ceoB02 B        :191-286,B:341-394                    CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhh....eeehhhhhhhhhhhhhhh.hhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh......eeeeeeeeeee.....hhhhhhhhhhhhheeeeee...hhhhhhhhhhhhhhhhh................eeeeeeeeee.......hhhhheeeeeee.....eeeeeeeeeeeeeeeeee....eeeeeee....eeeeeeee...hhhhhhhhhhhhhhhhhhhhheeeeeeeeee.eeeeeeeehhhhhhhhh.......................eeeeeeeeee............--------......eee....eeeeeee....eeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ---T------------------------------------------------------------------------N----------------P---------------------------------------------------------N-------------------T-----------------------------------P-------------------------------------------------------F-----------------------------------------------Y-------------------------------L------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SERPIN     ------------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: B:20-188 UniProt: 1-208 [INCOMPLETE]                                                                                                                     ------------------------------------------------------------------------------------------Exon 1.4  PDB: B:279-328 UniProt: 299-348         Exon 1.5b  PDB: B:329-394 (gaps) UniProt: 349-415 [INCOMPLETE]     Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.3a  PDB: B:188-279 UniProt: 208-299                                                  ------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                 2ceo B  20 YKMSSINADFAFNLYRRFTVETPDKNIFFSPVSISAALVMLSFGACCSTQTEIVETLGFNLTDTPMVEIQHGFQHLICSLNFPKKELELQIGNALFIGKHLKPLAKFLNDVKTLYETEVFSTDFSNISAAKQEINSHVEMQTKGKVVGLIQDLKPNTIMVLVNYIHFKAQWANPFDPSKTEDSSSFLIDKTTTVQVPMMHQMEQYYHLVDMELNCTVLQMDYSKNALALFVLPKEGQMESVEAAMSSKTLKKWNRLLQKGWVDLFVPKFSISATYDLGATLLKMGIQHAYSENADFSGLTEDNGLKLSNAAHKAVLHIGEKGTEAAAVPE--------NTFLHPIIQIDRSFMLLILERSTRSILFLGKVVNPTE 394
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389     
                                                                                                                                                                                                                                                                                                                                                                   349      358

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	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 Unit

Classes(

)

Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Multi-domain proteins (alpha and beta) (2421)

Fold: Serpins (120)

Superfamily: Serpins (120)

Family: automated matches (20)

Protein domain: automated matches (20)

Human (Homo sapiens) [TaxId: 9606] (9)

1a	d2ceoa_	A:
1b	d2ceob_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Antithrombin; Chain I, domain 2 (100)

Homologous Superfamily: Antithrombin, subunit I, domain 2 (100)

Human (Homo sapiens) (80)

1a	2ceoA01	A:20-190,A:287-340
1b	2ceoB01	B:20-190,B:287-340

Class: Mainly Beta (13760)

Architecture: Roll (1513)

Topology: Alpha-1-antitrypsin; domain 1 (101)

Homologous Superfamily: Alpha-1-antitrypsin, domain 1 (101)

Human (Homo sapiens) (81)

2a	2ceoA02	A:191-286,A:341-394
2b	2ceoB02	B:191-286,B:341-394

(no "Pfam Domain" information available for 2CEO)

Asymmetric Unit(hide GO term definitions)

Chain A,B (THBG_HUMAN | P05543)

molecular function
	GO:0004867	serine-type endopeptidase inhibitor activity	Stops, prevents or reduces the activity of serine-type endopeptidases, enzymes that catalyze the hydrolysis of nonterminal peptide bonds in a polypeptide chain; a serine residue (and a histidine residue) are at the active center of the enzyme.
biological process
	GO:0010951	negative regulation of endopeptidase activity	Any process that decreases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins.
	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: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.

Asymmetric Unit
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	THBG_HUMAN \| P05543	:	2riv 2riw 2xn3 2xn5 2xn6 2xn7 4x30 4yia

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Description

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Ligands, Modified Residues, Ions (2, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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