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Title :   THE MOLECULAR BASIS OF VITAMIN E RETENTION: STRUCTURE OF HUMAN ALPHA-TOCOPHEROL TRANSFER PROTEIN

Authors :   R. Meier, T. Tomizaki, C. Schulze-Briese, U. Baumann, A. Stocker

Date :   24 Jun 03 (Deposition) - 14 Jan 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.95

Chains :   Asym./Biol. Unit : A

Keywords :   Transport, Ataxia, Aved, Transfer Protein, Tocopherol, Vitamin E Transport, Disease Mutation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Meier, T. Tomizaki, C. Schulze-Briese, U. Baumann, A. Stocker
The Molecular Basis Of Vitamin E Retention: Structure Of Human Alpha-Tocopherol Transfer Protein
J. Mol. Biol. V. 331 725 2003
PubMed-ID: 12899840 | Reference-DOI: 10.1016/S0022-2836(03)00724-1

Molecule 1 - ALPHA-TOCOPHEROL TRANSFER PROTEIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	STAR
	Expression System Vector	:	PET-28A
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	ALPHA-TTP, TTPA, TPP1

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 3)

No.	Name	Count	Type	Full Name
1	SO4	2	Ligand/Ion	SULFATE ION
2	VIV	1	Ligand/Ion	(2R)-2,5,7,8-TETRAMETHYL-2-[(4R,8R)-4,8,12-TRIMETHYLTRIDECYL]CHROMAN-6-OL

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS A:190 , ARG A:192 , LYS A:217 , ARG A:221 , HOH A:2124	BINDING SITE FOR RESIDUE SO4 A1276
2	AC2	SOFTWARE	HIS A:223 , HIS A:225 , SER A:232 , HIS A:236	BINDING SITE FOR RESIDUE SO4 A1277
3	AC3	SOFTWARE	SER A:136 , SER A:140 , ILE A:154 , PHE A:158 , VAL A:182 , LEU A:183 , PHE A:187 , VAL A:191 , HOH A:2050 , HOH A:2125	BINDING SITE FOR RESIDUE VIV A1278

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

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

Asymmetric/Biological Unit (8, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_022388	R	59	W	TTPA_HUMAN	Disease (AVED)	397515522	A	R	59	W
2	UniProt	VAR_005668	H	101	Q	TTPA_HUMAN	Disease (AVED)	121917849	A	H	101	Q
3	UniProt	VAR_022389	A	120	T	TTPA_HUMAN	Disease (AVED)	143010236	A	A	120	T
4	UniProt	VAR_022390	E	141	K	TTPA_HUMAN	Disease (AVED)	397515524	A	E	141	K
5	UniProt	VAR_037973	T	172	S	TTPA_HUMAN	Polymorphism	34647756	A	T	172	S
6	UniProt	VAR_007858	R	192	H	TTPA_HUMAN	Disease (AVED)	28936369	A	R	192	H
7	UniProt	VAR_022391	R	221	W	TTPA_HUMAN	Disease (AVED)	35916840	A	R	221	W
8	UniProt	VAR_022392	G	246	R	TTPA_HUMAN	Disease (AVED)	397515526	A	G	246	R

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

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CRAL_TRIO	PS50191	CRAL-TRIO lipid binding domain profile.	TTPA_HUMAN	88-253	1	A:88-253

Asymmetric/Biological Unit (5, 5)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000260116	1a	ENSE00002100795	chr8:63998612-63998377	236	TTPA_HUMAN	1-68	68	1	A:25-68	44
1.2	ENST00000260116	2	ENSE00001201488	chr8:63985647-63985494	154	TTPA_HUMAN	69-120	52	1	A:69-120	52
1.3	ENST00000260116	3	ENSE00001201483	chr8:63978656-63978463	194	TTPA_HUMAN	120-184	65	1	A:120-184	65
1.4	ENST00000260116	4	ENSE00000819496	chr8:63976875-63976765	111	TTPA_HUMAN	185-221	37	1	A:185-221	37
1.5	ENST00000260116	5	ENSE00001201491	chr8:63973984-63972342	1643	TTPA_HUMAN	222-278	57	1	A:222-275	54

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:251
 aligned with TTPA_HUMAN | P49638 from UniProtKB/Swiss-Prot  Length:278

    Alignment length:251
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274 
           TTPA_HUMAN    25 QPGLAALRRRAREAGVPLAPLPLTDSFLLRFLRARDFDLDLAWRLLKNYYKWRAECPEISADLHPRSIIGLLKAGYHGVLRSRDPTGSKVLIYRIAHWDPKVFTAYDVFRVSLITSELIVQEVETQRNGIKAIFDLEGWQFSHAFQITPSVAKKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSMIKPFLTEKIKERIHMHGNNYKQSLLQHFPDILPLEYGGEEFSMEDICQEWTNFIMKSEDYLSSISE 275
               SCOP domains d1oipa1 A:25-90 Alpha-tocopherol transfer protein                 d1oipa2 A:91-275 Alpha-tocopherol transfer protein                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh........hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh..eee.........eeeeee.hhh.....hhhhhhhhhhhhhhhhh.hhhhhhhheeeeee....hhhhhhh.hhhhhhhhhhhhhh.....eeeeeee..hhhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhhhhh....hhhhh....hhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------W-----------------------------------------Q------------------T--------------------K------------------------------S-------------------H----------------------------W------------------------R----------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------CRAL_TRIO  PDB: A:88-253 UniProt: 88-253                                                                                                                              ---------------------- PROSITE
           Transcript 1 (1) Exon 1.1a  PDB: A:25-68 UniProt: 1-68       Exon 1.2  PDB: A:69-120 UniProt: 69-120             ----------------------------------------------------------------Exon 1.4  PDB: A:185-221             Exon 1.5  PDB: A:222-275 UniProt: 222-278 [INCOMPLETE] Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------------------------------------Exon 1.3  PDB: A:120-184 UniProt: 120-184                        ------------------------------------------------------------------------------------------- Transcript 1 (2)
                 1oip A  25 QPGLAALRRRAREAGVPLAPLPLTDSFLLRFLRARDFDLDLAWRLLKNYYKWRAECPEISADLHPRSIIGLLKAGYHGVLRSRDPTGSKVLIYRIAHWDPKVFTAYDVFRVSLITSELIVQEVETQRNGIKAIFDLEGWQFSHAFQITPSVAKKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSMIKPFLTEKIKERIHMHGNNYKQSLLQHFPDILPLEYGGEEFSMEDICQEWTNFIMKSEDYLSSISE 275
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274

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 '\|'

(no "CATH Domain" information available for 1OIP)

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (TTPA_HUMAN | P49638)

molecular function
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
	GO:0043325	phosphatidylinositol-3,4-bisphosphate binding	Interacting selectively and non-covalently with phosphatidylinositol-3,4-bisphosphate, a derivative of phosphatidylinositol in which the inositol ring is phosphorylated at the 3' and 4' positions.
	GO:0005546	phosphatidylinositol-4,5-bisphosphate binding	Interacting selectively and non-covalently with phosphatidylinositol-4,5-bisphosphate, a derivative of phosphatidylinositol in which the inositol ring is phosphorylated at the 4' and 5' positions.
	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:0005215	transporter activity	Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
	GO:0008431	vitamin E binding	Interacting selectively and non-covalently with vitamin E, tocopherol, which includes a series of eight structurally similar compounds. Alpha-tocopherol is the most active form in humans and is a powerful biological antioxidant.
	GO:0019842	vitamin binding	Interacting selectively and non-covalently with a vitamin, one of a number of unrelated organic substances that occur in many foods in small amounts and that are necessary in trace amounts for the normal metabolic functioning of the body.
biological process
	GO:0032502	developmental process	A biological process whose specific outcome is the progression of an integrated living unit: an anatomical structure (which may be a subcellular structure, cell, tissue, or organ), or organism over time from an initial condition to a later condition.
	GO:0001892	embryonic placenta development	The embryonically driven process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin.
	GO:0051452	intracellular pH reduction	Any process that reduces the internal pH of a cell, measured by the concentration of the hydrogen ion.
	GO:0006629	lipid metabolic process	The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
	GO:0060548	negative regulation of cell death	Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death.
	GO:0090212	negative regulation of establishment of blood-brain barrier	Any process that decreases the rate, frequency or extent of the establishment of the blood-brain barrier, a selectively permeable structural and functional barrier that exists between the capillaries and the brain.
	GO:0046909	obsolete intermembrane transport	OBSOLETE. The directed movement of substances between any membrane of a cell, including the plasma membrane and its regions.
	GO:0001890	placenta development	The process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin.
	GO:0007584	response to nutrient	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a nutrient stimulus.
	GO:0009268	response to pH	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a pH stimulus. pH is a measure of the acidity or basicity of an aqueous solution.
	GO:0009636	response to toxic substance	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a toxic stimulus.
	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.
	GO:0042360	vitamin E metabolic process	The chemical reactions and pathways involving vitamin E, tocopherol, which includes a series of eight structurally similar compounds. Alpha-tocopherol is the most active form in humans and is a powerful biological antioxidant.
	GO:0051180	vitamin transport	The directed movement of vitamins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. A vitamin is one of a number of unrelated organic substances that occur in many foods in small amounts and that are necessary in trace amounts for the normal metabolic functioning of the body.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
	GO:0005770	late endosome	A prelysosomal endocytic organelle differentiated from early endosomes by lower lumenal pH and different protein composition. Late endosomes are more spherical than early endosomes and are mostly juxtanuclear, being concentrated near the microtubule organizing center.

Asymmetric/Biological Unit
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	TTPA_HUMAN \| P49638	:	1oiz 1r5l

1oiz	THE MOLECULAR BASIS OF VITAMIN E RETENTION : STRUCTURE OF HUMAN ALPHA-TOCOPHEROL TRANSFER PROTEIN
1r5l	CRYSTAL STRUCTURE OF HUMAN ALPHA-TOCOPHEROL TRANSFERPROTEIN BOUND TO ITS LIGAND

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 3)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (8, 8)

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Exons (5, 5)

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