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Theoretical Model (Jmol Viewer)

Title :   MODEL OF THE STRUCTURE OF THE START DOMAINS OF HUMAN MLN64 IN COMPLEX WITH CHOLESTEROL

Authors :   M. Murcia, J. D. Faraldo-Gomez, F. R. Maxfield, B. Roux

Date :   04 Sep 06 (Deposition) - 19 Sep 06 (Release) - 05 Dec 06 (Revision)

Method :   THEORETICAL MODEL

Resolution :   NOT APPLICABLE

Chains :   Theor. Model : A  (10x)

Keywords :   Steroidogenic Acute Regulatory Protein, Star, Star-Related Lipid Transfer, Start, Mln64, Cholesterol, Docking, Homology Modeling, Generalized-Born, Binding, Molecular Dynamics, Cholesterol Release (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Murcia, J. D. Faraldo-Gomez, F. R. Maxfield, B. Roux
Modeling The Structure Of The Start Domains Of Mln64 And Star Proteins In Complex With Cholesterol.
J. Lipid Res. V. 47 2614 2006
PubMed: search
(for further references see the PDB file header)

Molecule 1 - MLN64 PROTEIN
	Chains	:	A
	Fragment	:	START DOMAIN (STARD3)
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS


Theoretical Model (10x)	:

Summary Information (see also Sequences/Alignments below)

Theoretical Model (1, 1)

No.	Name	Count	Type	Full Name
1	CLR	1	Ligand/Ion	CHOLESTEROL

(no "Site" information available for 2I92)

(no "SS Bond" information available for 2I92)

(no "Cis Peptide Bond" information available for 2I92)

(no "SAP(SNP)/Variant" information available for 2I92)

Theoretical Model (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	START	PS50848	START domain profile.	STAR3_HUMAN	248-443	1	A:248-443

Theoretical Model (8, 8)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000336308	1a	ENSE00001057947	chr17:37793318-37793484	167	STAR3_HUMAN	-	0	0	-	-
1.3a	ENST00000336308	3a	ENSE00002173531	chr17:37809734-37810003	270	STAR3_HUMAN	1-73	73	0	-	-
1.4b	ENST00000336308	4b	ENSE00001057951	chr17:37813261-37813338	78	STAR3_HUMAN	74-99	26	0	-	-
1.5b	ENST00000336308	5b	ENSE00001057946	chr17:37814028-37814105	78	STAR3_HUMAN	100-125	26	0	-	-
1.6b	ENST00000336308	6b	ENSE00001057941	chr17:37814226-37814279	54	STAR3_HUMAN	126-143	18	0	-	-
1.6d	ENST00000336308	6d	ENSE00001057943	chr17:37814658-37814775	118	STAR3_HUMAN	144-183	40	0	-	-
1.6g	ENST00000336308	6g	ENSE00001057948	chr17:37814975-37815073	99	STAR3_HUMAN	183-216	34	0	-	-
1.7b	ENST00000336308	7b	ENSE00001057950	chr17:37815304-37815359	56	STAR3_HUMAN	216-234	19	1	A:230-234	5
1.8a	ENST00000336308	8a	ENSE00001057944	chr17:37815714-37815806	93	STAR3_HUMAN	235-265	31	1	A:235-265	31
1.8c	ENST00000336308	8c	ENSE00000950629	chr17:37816464-37816526	63	STAR3_HUMAN	266-286	21	1	A:266-286	21
1.8d	ENST00000336308	8d	ENSE00000950630	chr17:37816684-37816779	96	STAR3_HUMAN	287-318	32	1	A:287-318	32
1.9	ENST00000336308	9	ENSE00000950631	chr17:37817063-37817142	80	STAR3_HUMAN	319-345	27	1	A:319-345	27
1.10	ENST00000336308	10	ENSE00000950632	chr17:37817234-37817338	105	STAR3_HUMAN	345-380	36	1	A:345-380	36
1.11a	ENST00000336308	11a	ENSE00001239164	chr17:37818504-37818597	94	STAR3_HUMAN	380-411	32	1	A:380-411	32
1.11e	ENST00000336308	11e	ENSE00001844235	chr17:37819057-37819737	681	STAR3_HUMAN	412-445	34	1	A:412-443	32

Theoretical Model

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:214
 aligned with STAR3_HUMAN | Q14849 from UniProtKB/Swiss-Prot  Length:445

    Alignment length:214
                                   239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439    
          STAR3_HUMAN   230 SFSAQEREYIRQGKEATAVVDQILAQEENWKFEKNNEYGDTVYTIEVPFHGKTFILKTFLPCPAELVYQEVILQPERMVLWNKTVTACQILQRVEDNTLISYDVSAGAAGGVVSPRDFVNVRRIERRRDRYLSSGIATSHSAKPPTHKYVRGENGPGGFIVLKSASNPRVCTFVWILNTDLKGRLPRYLIHQSLAATMFEFAFHLRQRISELGA 443
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhheeeee.....eeeeeee...eeeeeeeeee..hhhhhhhhh..hhhhhhhhh..eeeeeeeeee...eeeeeeee..........eeeeeeeeeee...eeeeeeee............ee.ee..eeeeeee.......eeeeeee.ee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------START  PDB: A:248-443 UniProt: 248-443                                                                                                                                                               PROSITE
           Transcript 1 (1) 1.7b Exon 1.8a  PDB: A:235-265      Exon 1.8c            Exon 1.8d  PDB: A:287-318       --------------------------Exon 1.10  PDB: A:345-380           -------------------------------Exon 1.11e  PDB: A:412-443       Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------------------------------Exon 1.9  PDB: A:319-345   ----------------------------------Exon 1.11a  PDB: A:380-411      -------------------------------- Transcript 1 (2)
                 2i92 A 230 SFSAQEREYIRQGKEATAVVDQILAQEENWKFEKNNEYGDTVYTIEVPFHGKTFILKTFLPCPAELVYQEVILQPERMVLWNKTVTACQILQRVEDNTLISYDVSAGAAGGVVSPRDFVNVRRIERRRDRYLSSGIATSHSAKPPTHKYVRGENGPGGMIVLKSASNPRVCTFVWILNTDLKGRLPRYLIHQSLAATMFEFAFHLRQRISELGA 443
                                   239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439

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 "SCOP Domain" information available for 2I92)

(no "CATH Domain" information available for 2I92)

(no "Pfam Domain" information available for 2I92)

Theoretical Model(hide GO term definitions)

Chain A (STAR3_HUMAN | Q14849)

molecular function
	GO:0015485	cholesterol binding	Interacting selectively and non-covalently with cholesterol (cholest-5-en-3-beta-ol); the principal sterol of vertebrates and the precursor of many steroids, including bile acids and steroid hormones.
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
	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).
biological process
	GO:0008203	cholesterol metabolic process	The chemical reactions and pathways involving cholesterol, cholest-5-en-3 beta-ol, the principal sterol of vertebrates and the precursor of many steroids, including bile acids and steroid hormones. It is a component of the plasma membrane lipid bilayer and of plasma lipoproteins and can be found in all animal tissues.
	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:0006869	lipid transport	The directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
	GO:0006839	mitochondrial transport	Transport of substances into, out of or within a mitochondrion.
	GO:0006701	progesterone biosynthetic process	The chemical reactions and pathways resulting in the formation of progesterone, a steroid hormone produced in the ovary which prepares and maintains the uterus for pregnancy. Also found in plants.
	GO:0006694	steroid biosynthetic process	The chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus; includes de novo formation and steroid interconversion by modification.
	GO:0008202	steroid metabolic process	The chemical reactions and pathways involving steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus.
	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:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005768	endosome	A vacuole to which materials ingested by endocytosis are delivered.
	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:0031902	late endosome membrane	The lipid bilayer surrounding a late endosome.
	GO:0005765	lysosomal membrane	The lipid bilayer surrounding the lysosome and separating its contents from the cell cytoplasm.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

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	STAR3_HUMAN \| Q14849	:	1em2 5i9j

1em2	CRYSTAL STRUCTURE OF THE APO FORM OF THE START DOMAIN OF MLN64
1jss	CRYSTAL STRUCTURE OF THE APO FORM OF THE START DOMAIN OF STARD4 RELATED ID: 1LN1-3 RELATED DB: PDB CRYSTAL STRUCTURES OF THE BOUND FORM OF THE START DOMAIN OF PCTP IN COMPLEX WITH PC RELATED ID: PENDING RELATED DB: PDB THEORETICAL MODEL OF THE START DOMAIN OF STAR (HUMAN) IN COMPLEX WITH CHOLESTEROL (MURCIA ET AL.)

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Ligands, Modified Residues, Ions (1, 1)

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