3NGH - JenaLib

Title :   MOLECULAR ANALYSIS OF THE INTERACTION OF THE HDL RECEPTOR SR-BI WITH THE ADAPTOR PROTEIN PDZK1

Authors :   O. Kocher, G. Birrane, M. Krieger, J. A. Ladias

Date :   11 Jun 10 (Deposition) - 25 Aug 10 (Release) - 26 Jan 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

Keywords :   Pdz Domain, Adaptor Protein, Sr-Bi, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   O. Kocher, G. Birrane, K. Tsukamoto, S. Fenske, A. Yesilaltay, R. Pal, K. Daniels, J. A. Ladias, M. Krieger
In Vitro And In Vivo Analysis Of The Binding Of The C Terminus Of The Hdl Receptor Scavenger Receptor Class B, Type I (Sr-Bi), To The Pdz1 Domain Of Its Adaptor Protein Pdzk1.
J. Biol. Chem. V. 285 34999 2010
PubMed-ID: 20739281 | Reference-DOI: 10.1074/JBC.M110.164418

Compounds

Molecule 1 - PDZ DOMAIN-CONTAINING PROTEIN 1
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMAL-C2X
	Expression System Strain	:	C41(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 7-106
	Gene	:	CAP70, NHERF3, PDZK1
	Mutation	:	YES
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Synonym	:	NHERF-3, NA(+)/H(+) EXCHANGE REGULATORY COFACTOR NHE-RF3, CFTR-ASSOCIATED PROTEIN OF 70 KDA, NA/PI COTRANSPORTER C-TERMINAL- ASSOCIATED PROTEIN 1, NAPI-CAP1, SODIUM-HYDROGEN EXCHANGER REGULATORY FACTOR 3, NA(+)/H(+) EXCHANGER REGULATORY FACTOR 3

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Exons (0, 0)

Sequences/Alignments

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:106
 aligned with NHRF3_MOUSE | Q9JIL4 from UniProtKB/Swiss-Prot  Length:519

    Alignment length:109
                                    15        25        35        45        55        65        75        85        95       105         
          NHRF3_MOUSE     6 NPRECKLSKQEGQNYGFFLRIEKDTDGHLIRVIEEGSPAEKAGLLDGDRVLRINGVFVDKEEHAQVVELVRKSGNSVTLLVLDGDSYEKAVKNQVDLKELDQSQREAAL 114
               SCOP domains d3ngha_ A: automated matches                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.........eee........eee.....hhhhhh......eeeee..ee....hhhhhhhhhhhh..eeeeeeehhhhhhhhhhh..hhhhh..---eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---PDZ  PDB: A:9-90 UniProt: 9-90                                                    ------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 3ngh A   6 GPRESKLSKQEGQNYGFFLRIEKDTDGHLIRVIEEGSPAEKAGLLDGDRVLRINGVFVDKEEHAQVVELVRKSGNSVTLLVLDGDSYEKAVKNQVDLKELDQ---EAKL 111
                                    15        25        35        45        55        65        75        85        95       105 |   |   
                                                                                                                               107 108

Chain B from PDB  Type:PROTEIN  Length:106
 aligned with NHRF3_MOUSE | Q9JIL4 from UniProtKB/Swiss-Prot  Length:519

    Alignment length:109
                                    15        25        35        45        55        65        75        85        95       105         
          NHRF3_MOUSE     6 NPRECKLSKQEGQNYGFFLRIEKDTDGHLIRVIEEGSPAEKAGLLDGDRVLRINGVFVDKEEHAQVVELVRKSGNSVTLLVLDGDSYEKAVKNQVDLKELDQSQREAAL 114
               SCOP domains d3nghb_ B: automated matches                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---PDZ-3nghB01 B:9-87                                                             --------------------------- Pfam domains (1)
           Pfam domains (2) ---PDZ-3nghB02 B:9-87                                                             --------------------------- Pfam domains (2)
         Sec.struct. author ..eeeeee.........eee........eee.....hhhhhhh.....eeeee..ee....hhhhhhhhhhhh..eeeeeeehhhhhhhhhhh..hhhhh..---.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---PDZ  PDB: B:9-90 UniProt: 9-90                                                    ------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 3ngh B   6 GPRESKLSKQEGQNYGFFLRIEKDTDGHLIRVIEEGSPAEKAGLLDGDRVLRINGVFVDKEEHAQVVELVRKSGNSVTLLVLDGDSYEKAVKNQVDLKELDQ---EAKL 111
                                    15        25        35        45        55        65        75        85        95       105 |   |   
                                                                                                                               107 108

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (1, 2)

Gene Ontology (12, 12)

Asymmetric Unit(hide GO term definitions)

Chain A,B (NHRF3_MOUSE | Q9JIL4)

molecular function
	GO:0030165	PDZ domain binding	Interacting selectively and non-covalently with a PDZ domain of a protein, a domain found in diverse signaling proteins.
	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:0015879	carnitine transport	The directed movement of carnitine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carnitine is a compound that participates in the transfer of acyl groups across the inner mitochondrial membrane.
	GO:0090002	establishment of protein localization to plasma membrane	The directed movement of a protein to a specific location in the plasma membrane.
	GO:0034767	positive regulation of ion transmembrane transport	Any process that activates or increases the frequency, rate or extent of the directed movement of ions from one side of a membrane to the other.
	GO:0090314	positive regulation of protein targeting to membrane	Any process that increases the frequency, rate or extent of the process of directing proteins towards a membrane, usually using signals contained within the protein.
	GO:0044070	regulation of anion transport	Any process that modulates the frequency, rate or extent of the directed movement of anions, atoms or small molecules with a net negative charge 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:0031526	brush border membrane	The portion of the plasma membrane surrounding the brush border.
	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:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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