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(-) Description

Title :  STEROL CARRIER PROTEIN-2, NMR, 20 STRUCTURES
 
Authors :  F. Lopez-Garcia, T. Szyperski, J. H. Dyer, T. Choinowski, U. Seedorf, H K. Wuthrich
Date :  14 Oct 99  (Deposition) - 03 Jul 00  (Release) - 24 Aug 11  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
NMR Structure *:  A  (1x)
Keywords :  Transfer Protein, Sterol Carrier Protein 2, Protein Structure, Protein Dynamics, Nitroxide Spin Labels, Lipid Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  F. Lopez-Garcia, T. Szyperski, J. H. Dyer, T. Choinowski, U. Seedorf, H. Hauser, K. Wuthrich
Nmr Structure Of The Sterol Carrier Protein-2: Implications For The Biological Role
J. Mol. Biol. V. 295 595 2000
PubMed-ID: 10623549  |  Reference-DOI: 10.1006/JMBI.1999.3355
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NONSPECIFIC LIPID-TRANSFER PROTEIN
    Cellular LocationCYTOPLASMIC
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPGEX-2T/HSCP2
    Expression System StrainXL-1 BLUE
    Expression System Taxid562
    OrganLIVER
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymSCP-2, NSL-TP, STEROL CARRIER PROTEIN 2

 Structural Features

(-) Chains, Units

  1
NMR Structure (20x)A
NMR Structure * (1x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1QND)

(-) Sites  (0, 0)

(no "Site" information available for 1QND)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003715141aENSE00002152663chr1:53392901-53393137237NLTP_HUMAN1-23230--
1.2aENST000003715142aENSE00001762232chr1:53407468-5340752558NLTP_HUMAN24-43200--
1.3ENST000003715143ENSE00001789899chr1:53413681-5341375272NLTP_HUMAN43-67250--
1.4ENST000003715144ENSE00001710982chr1:53416427-53416558132NLTP_HUMAN67-111450--
1.5ENST000003715145ENSE00001608911chr1:53420412-5342047665NLTP_HUMAN111-132220--
1.6ENST000003715146ENSE00001647299chr1:53427175-53427301127NLTP_HUMAN133-175430--
1.8ENST000003715148ENSE00001736038chr1:53440441-5344050464NLTP_HUMAN175-196220--
1.9bENST000003715149bENSE00001699547chr1:53442355-5344244187NLTP_HUMAN196-225300--
1.10ENST0000037151410ENSE00001684266chr1:53443889-53444039151NLTP_HUMAN225-275510--
1.11bENST0000037151411bENSE00001691043chr1:53446068-53446215148NLTP_HUMAN276-325500--
1.12bENST0000037151412bENSE00002148975chr1:53453701-53453808108NLTP_HUMAN325-361370--
1.14aENST0000037151414aENSE00001698748chr1:53480562-53480715154NLTP_HUMAN361-412520--
1.15aENST0000037151415aENSE00002137029chr1:53493641-53493743103NLTP_HUMAN412-446351A:1-2222
1.16ENST0000037151416ENSE00001775074chr1:53504589-53504718130NLTP_HUMAN447-490441A:23-6644
1.17aENST0000037151417aENSE00001801163chr1:53513530-5351360980NLTP_HUMAN490-516271A:66-9227
1.17mENST0000037151417mENSE00002199588chr1:53516281-535173751095NLTP_HUMAN517-547311A:93-12331

(-) Sequences/Alignments

NMR Structure
   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:123
 aligned with NLTP_HUMAN | P22307 from UniProtKB/Swiss-Prot  Length:547

    Alignment length:123
                                   434       444       454       464       474       484       494       504       514       524       534       544   
           NLTP_HUMAN   425 SSASDGFKANLVFKEIEKKLEEEGEQFVKKIGGIFAFKVKDGPGGKEATWVVDVKNGKGSVLPNSDKKADCTITMADSDFLALMTGKMNPQSAFFQGKLKITGNMGLAMKLQNLQLQPGNAKL 547
               SCOP domains d1qnda_ A: Sterol carrier protein 2 (SCP2)                                                                                  SCOP domains
               CATH domains 1qndA00 A:1-123 Nonspecific Lipid-transfer Protein; Chain A                                                                 CATH domains
               Pfam domains ------------SCP2-1qndA01 A:13-115                                                                                  -------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhh.hhhhhhhh.eeeeeeee......eeeeeeee.....eee........eeeee.hhhhhhhh...........................hhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.15a  PDB: A:1-2Exon 1.16  PDB: A:23-66 UniProt: 447-490    --------------------------Exon 1.17m  PDB: A:93-123       Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------Exon 1.17a  PDB: A:66-92   ------------------------------- Transcript 1 (2)
                 1qnd A   1 SSASDGFKANLVFKEIEKKLEEEGEQFVKKIGGIFAFKVKDGPGGKEATWVVDVKNGKGSVLPNSDKKADCTITMADSDFLALMTGKMNPQSAFFQGKLKITGNMGLAMKLQNLQLQPGNAKL 123
                                    10        20        30        40        50        60        70        80        90       100       110       120   

   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 '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: SCP2 (6)

(-) Gene Ontology  (40, 40)

NMR Structure(hide GO term definitions)
Chain A   (NLTP_HUMAN | P22307)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    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:0000062    fatty-acyl-CoA binding    Interacting selectively and non-covalently with acyl-CoA, any derivative of coenzyme A in which the sulfhydryl group is in thiolester linkage with a fatty acyl group.
    GO:0008289    lipid binding    Interacting selectively and non-covalently with a lipid.
    GO:0036042    long-chain fatty acyl-CoA binding    Interacting selectively and non-covalently with a long-chain fatty acyl-CoA. A long-chain fatty acyl-CoA is any derivative of coenzyme A in which the sulfhydryl group is in a thioester linkage with a long-chain fatty-acyl group. Long-chain fatty-acyl-CoAs have chain lengths of C13 or more.
    GO:0070538    oleic acid binding    Interacting selectively and non-covalently with oleic acid, the 18-carbon monounsaturated fatty acid (9Z)-octadec-9-enoic acid.
    GO:0008526    phosphatidylinositol transporter activity    Enables the directed movement of phosphatidylinositol into, out of or within a cell, or between cells. Phosphatidylinositol refers to any glycophospholipids with its sn-glycerol 3-phosphate residue is esterified to the 1-hydroxyl group of 1D-myo-inositol.
    GO:0033814    propanoyl-CoA C-acyltransferase activity    Catalysis of the reaction: 3alpha,7alpha,12alpha-trihydroxy-5beta-cholanoyl-CoA + propanoyl-CoA = CoA + 3alpha,7alpha,12alpha-trihydroxy-24-oxo-5beta-cholestanoyl-CoA.
    GO:0050632    propionyl-CoA C2-trimethyltridecanoyltransferase activity    Catalysis of the reaction: 4,8,12-trimethyltridecanoyl-CoA + propanoyl-CoA = 3-oxopristanoyl-CoA + CoA.
    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:0005102    receptor binding    Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
    GO:0015248    sterol transporter activity    Enables the directed movement of sterols into, out of or within a cell, or between cells. Sterol are steroids with one or more hydroxyl groups and a hydrocarbon side-chain in the molecule.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
    GO:0016747    transferase activity, transferring acyl groups other than amino-acyl groups    Catalysis of the transfer of an acyl group, other than amino-acyl, from one compound (donor) to another (acceptor).
biological process
    GO:0036109    alpha-linolenic acid metabolic process    The chemical reactions and pathways involving alpha-linolenic acid, an unsaturated omega-6 fatty acid that has the molecular formula C18H32O2.
    GO:0006699    bile acid biosynthetic process    The chemical reactions and pathways resulting in the formation of bile acids, any of a group of steroid carboxylic acids occurring in bile.
    GO:0033540    fatty acid beta-oxidation using acyl-CoA oxidase    A fatty acid beta-oxidation pathway in which the initial step, which converts an acyl-CoA to a trans-2-enoyl-CoA, is catalyzed by acyl-CoA oxidase; the electrons removed by oxidation pass directly to oxygen and produce hydrogen peroxide, which is cleaved by peroxisomal catalases. Fatty acid beta-oxidation begins with the addition of coenzyme A to a fatty acid, and ends when only two or three carbons remain (as acetyl-CoA or propionyl-CoA respectively).
    GO:0032959    inositol trisphosphate biosynthetic process    The chemical reactions and pathways resulting in the formation of inositol trisphosphate, 1,2,3,4,5,6-cyclohexanehexol, with three phosphate groups attached.
    GO:1901373    lipid hydroperoxide transport    The directed movement of a lipid hydroperoxide into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    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:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0007031    peroxisome organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a peroxisome. A peroxisome is a small, membrane-bounded organelle that uses dioxygen (O2) to oxidize organic molecules.
    GO:0015914    phospholipid transport    The directed movement of phospholipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Phospholipids are any lipids containing phosphoric acid as a mono- or diester.
    GO:0032385    positive regulation of intracellular cholesterol transport    Any process that activates or increases the frequency, rate or extent of the directed movement of cholesterol within cells.
    GO:0045940    positive regulation of steroid metabolic process    Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving steroids.
    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:0072659    protein localization to plasma membrane    A process in which a protein is transported to, or maintained in, a specific location in the plasma membrane.
    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:0015918    sterol transport    The directed movement of sterols into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Sterols are steroids with one or more hydroxyl groups and a hydrocarbon side-chain in the molecule.
    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: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:0043231    intracellular membrane-bounded organelle    Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
    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.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    GO:0005782    peroxisomal matrix    The volume contained within the membranes of a peroxisome; in many cells the matrix contains a crystalloid core largely composed of urate oxidase.
    GO:0005777    peroxisome    A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism.
    GO:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.

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        NLTP_HUMAN | P223072c0l

(-) Related Entries Specified in the PDB File

4438 CHEMICAL SHIFTS