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(-) Description

Title :  SOLUTION STRUCTURE OF THE SH3 DOMAIN OF HUMAN NOSTRIN
 
Authors :  H. Abe, N. Tochio, K. Miyamoto, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  06 Apr 07  (Deposition) - 09 Oct 07  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Nitric Oxide Synthase Trafficker, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Protein Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Abe, K. Miyamoto, N. Tochio, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama
Solution Structure Of The Sh3 Domain Of Human Nostrin
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NOSTRIN
    ChainsA
    EngineeredYES
    Expression System PlasmidP050620-15
    Expression System Vector TypePLASMID
    FragmentSH3 DOMAIN
    GeneNOSTRIN
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsCELL-FREE PROTEIN SYNTHESIS
    SynonymENOS TRAFFICKING INDUCER, NITRIC OXIDE SYNTHASE TRAFFICKER, NITRIC OXIDE SYNTHASE TRAFFIC INDUCER, BM247 HOMOLOG

 Structural Features

(-) Chains, Units

  
NMR Structure (20x)

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2YUN)

(-) Sites  (0, 0)

(no "Site" information available for 2YUN)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

NMR Structure (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_032569G473ENOSTN_HUMANPolymorphism479661AE40E

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

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SH3PS50002 Src homology 3 (SH3) domain profile.NOSTN_HUMAN438-497  1A:6-64

(-) Exons   (3, 3)

NMR Structure (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.5bENST000003176475bENSE00001829457chr2:169658928-169659183256NOSTN_HUMAN1-990--
1.7aENST000003176477aENSE00001723304chr2:169668077-16966816286NOSTN_HUMAN10-38290--
1.9ENST000003176479ENSE00001669046chr2:169681144-16968122784NOSTN_HUMAN38-66290--
1.10ENST0000031764710ENSE00001592289chr2:169684668-16968473063NOSTN_HUMAN66-87220--
1.11ENST0000031764711ENSE00001652061chr2:169684930-16968501182NOSTN_HUMAN87-114280--
1.12bENST0000031764712bENSE00001187459chr2:169687982-16968804463NOSTN_HUMAN115-135210--
1.13aENST0000031764713aENSE00001187453chr2:169690737-16969083599NOSTN_HUMAN136-168330--
1.14bENST0000031764714bENSE00001071330chr2:169699502-169699627126NOSTN_HUMAN169-210420--
1.16ENST0000031764716ENSE00002149442chr2:169707594-16970769299NOSTN_HUMAN211-243330--
1.17ENST0000031764717ENSE00001071351chr2:169707789-169707914126NOSTN_HUMAN244-285420--
1.18aENST0000031764718aENSE00001071328chr2:169711862-169711970109NOSTN_HUMAN286-322370--
1.19cENST0000031764719cENSE00001772533chr2:169713200-16971328889NOSTN_HUMAN322-351300--
1.20cENST0000031764720cENSE00001187435chr2:169716022-169716147126NOSTN_HUMAN352-393420--
1.21bENST0000031764721bENSE00001187432chr2:169717305-169717419115NOSTN_HUMAN394-432391A:1-5 (gaps)7
1.22ENST0000031764722ENSE00001187426chr2:169718470-16971855990NOSTN_HUMAN432-462311A:6-2924
1.23dENST0000031764723dENSE00001833413chr2:169721344-169722024681NOSTN_HUMAN462-506451A:29-7345

(-) 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:79
 aligned with NOSTN_HUMAN | Q8IVI9 from UniProtKB/Swiss-Prot  Length:506

    Alignment length:91
                                                                                                              506      
                                   431       441       451       461       471       481       491       501    |    - 
          NOSTN_HUMAN   422 GQSNPGSSTPAPGAAQLSSRLCKALYSFQARQDDELNLEKGDIVIIHEKKEGGWWFGSLNGKKGHFPAAYVEELPSNAGNTATKA------   -
               SCOP domains d2y  un          a_ A: automated matches                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------SH3_1-2yunA01 A:11-56                         ----------------------- Pfam domains
         Sec.struct. author ...--..----------..eeeee..................eeeeee......eeee....eeee....eeee................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------E--------------------------------------- SAPs(SNPs)
                    PROSITE ----------------SH3  PDB: A:6-64 UniProt: 438-497                           --------------- PROSITE
           Transcript 1 (1) Exon 1.21b -----------------------------Exon 1.23d  PDB: A:29-73 UniProt: 462-506    ------ Transcript 1 (1)
           Transcript 1 (2) ----------Exon 1.22  PDB: A:6-29         -------------------------------------------------- Transcript 1 (2)
                 2yun A   1 GSS--GS----------SGRLCKALYSFQARQDDELNLEKGDIVIIHEKKEEGWWFGSLNGKKGHFPAAYVEELPSNAGNTATKASGPSSG  79
                              |  ||  -       | 8        18        28        38        48        58        68        78 
                              3  4|          6                                                                         
                                  5                                                                                    

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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, 1)

NMR Structure

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: SH3 (175)

(-) Gene Ontology  (13, 13)

NMR Structure(hide GO term definitions)
Chain A   (NOSTN_HUMAN | Q8IVI9)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    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:0006897    endocytosis    A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle.
    GO:0045892    negative regulation of transcription, DNA-templated    Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0050999    regulation of nitric-oxide synthase activity    Any process that modulates the activity of the enzyme nitric-oxide synthase.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0031410    cytoplasmic vesicle    A vesicle found in the cytoplasm of a cell.
    GO:0005856    cytoskeleton    Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
    GO:0030666    endocytic vesicle membrane    The lipid bilayer surrounding an endocytic vesicle.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    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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