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(-) Description

Title :  SOLUTION STRUCTURE OF THE WW DOMAIN FROM THE HUMAN SYNTAXIN-BINDING PROTEIN 4
 
Authors :  S. Ohnishi, N. Tochio, M. Sato, S. Koshiba, T. Harada, S. Watanabe, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  03 Apr 07  (Deposition) - 09 Oct 07  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Synip, Stxbp4, Ww Domain, Nmr, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Ohnishi, N. Tochio, M. Sato, S. Koshiba, T. Harada, S. Watanabe, T. Kigawa, S. Yokoyama
Solution Structure Of The Ww Domain From The Human Syntaxin-Binding Protein 4
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SYNTAXIN-BINDING PROTEIN 4
    ChainsA
    EngineeredYES
    Expression System PlasmidP070213-03
    Expression System Vector TypePLASMID
    FragmentWW DOMAIN, UNP RESIDUES 498-530
    GeneSTXBP4
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsCELL-FREE PROTEIN SYNTHESIS
    SynonymSYNTAXIN 4-INTERACTING PROTEIN, STX4-INTERACTING PROTEIN, SYNIP

 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 2YSG)

(-) Sites  (0, 0)

(no "Site" information available for 2YSG)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1WW_DOMAIN_2PS50020 WW/rsp5/WWP domain profile.STXB4_HUMAN496-529  1A:8-39
2WW_DOMAIN_1PS01159 WW/rsp5/WWP domain signature.STXB4_HUMAN502-527  1A:12-37

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1bENST000003763521bENSE00001470286chr17:53046126-5304617651STXB4_HUMAN-00--
1.2ENST000003763522ENSE00001334539chr17:53062975-5306305278STXB4_HUMAN-00--
1.3ENST000003763523ENSE00002185733chr17:53063503-53063627125STXB4_HUMAN1-16160--
1.4aENST000003763524aENSE00001774800chr17:53068186-53068318133STXB4_HUMAN16-60450--
1.6ENST000003763526ENSE00001717099chr17:53076706-53076812107STXB4_HUMAN61-96360--
1.7bENST000003763527bENSE00001470279chr17:53076993-53077203211STXB4_HUMAN96-166710--
1.8ENST000003763528ENSE00001273502chr17:53078169-5307824476STXB4_HUMAN167-192260--
1.9ENST000003763529ENSE00001101541chr17:53084867-5308495892STXB4_HUMAN192-222310--
1.10bENST0000037635210bENSE00001101524chr17:53108529-5310862597STXB4_HUMAN223-255330--
1.11ENST0000037635211ENSE00001101564chr17:53111529-5311162092STXB4_HUMAN255-285310--
1.12aENST0000037635212aENSE00001101552chr17:53120597-5312068690STXB4_HUMAN286-315300--
1.14ENST0000037635214ENSE00001470271chr17:53124450-5312451566STXB4_HUMAN316-337220--
1.15ENST0000037635215ENSE00001470270chr17:53150261-53150437177STXB4_HUMAN338-396590--
1.16ENST0000037635216ENSE00001470268chr17:53155439-53155555117STXB4_HUMAN397-435390--
1.17ENST0000037635217ENSE00001470267chr17:53156047-5315609650STXB4_HUMAN436-452171A:1-33
1.18ENST0000037635218ENSE00001470265chr17:53158411-53158544134STXB4_HUMAN452-497461A:4-74
1.19ENST0000037635219ENSE00001470263chr17:53218671-5321872858STXB4_HUMAN497-516201A:8-2619
1.20bENST0000037635220bENSE00001823147chr17:53237158-532416464489STXB4_HUMAN516-553381A:26-4015

(-) 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:40
 aligned with STXB4_HUMAN | Q6ZWJ1 from UniProtKB/Swiss-Prot  Length:553

    Alignment length:87
                                   453       463       473       483       493       503       513       523       
          STXB4_HUMAN   444 NSTPLSNLSERRAVLASQTSLTPLGRNGRSIPATLALESKELVKSVRALLDMDCLPYGWEEAYTADGIKYFINHVTQTTSWIHPVMS 530
               SCOP domains d2y                     sga_                           A: automated matches             SCOP domains
               CATH domains ------------------------------------------------------2ysgA01 A:8-40                    CATH domains
               Pfam domains ------------------------------------------------------WW-2ysgA01 A:8-37             --- Pfam domains
         Sec.struct. author ...---------------------....--------------------------....eeeee.....eeeee.....ee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------------------------------------WW_DOMAIN_2  PDB: A:8-39          - PROSITE (1)
                PROSITE (2) ----------------------------------------------------------WW_DOMAIN_1  PDB: A:12-37 --- PROSITE (2)
           Transcript 1 (1) Exon 1.17--------------------------------------------Exon 1.19           -------------- Transcript 1 (1)
           Transcript 1 (2) --------Exon 1.18  PDB: A:4-7 UniProt: 452-497        ------------------Exon 1.20b      Transcript 1 (2)
                 2ysg A   1 GSS---------------------GSSG--------------------------LPYGWEEAYTADGIKYFINHVTQTTSWIHPVMS  40
                              |      -         -    |  | -         -         -    |   13        23        33       
                              3                     4  7                          8                                

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  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: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

NMR Structure

(-) Gene Ontology  (14, 14)

NMR Structure(hide GO term definitions)
Chain A   (STXB4_HUMAN | Q6ZWJ1)
molecular function
    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:0019905    syntaxin binding    Interacting selectively and non-covalently with a syntaxin, a SNAP receptor involved in the docking of synaptic vesicles at the presynaptic zone of a synapse.
biological process
    GO:0006974    cellular response to DNA damage stimulus    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    GO:0015758    glucose transport    The directed movement of the hexose monosaccharide glucose into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0008286    insulin receptor signaling pathway    The series of molecular signals generated as a consequence of the insulin receptor binding to insulin.
    GO:1902808    positive regulation of cell cycle G1/S phase transition    Any process that activates or increases the frequency, rate or extent of cell cycle G1/S phase transition.
    GO:0010838    positive regulation of keratinocyte proliferation    Any process that increases the rate, frequency or extent of keratinocyte proliferation. Keratinocyte proliferation is the multiplication or reproduction of keratinocytes, resulting in the expansion of a cell population.
    GO:0050821    protein stabilization    Any process involved in maintaining the structure and integrity of a protein and preventing it from degradation or aggregation.
    GO:0006605    protein targeting    The process of targeting specific proteins to particular regions of the cell, typically membrane-bounded subcellular organelles. Usually requires an organelle specific protein sequence motif.
    GO:0061178    regulation of insulin secretion involved in cellular response to glucose stimulus    Any process that modulates the frequency, rate or extent of the regulated release of insulin that contributes to the response of a cell to glucose.
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:0045111    intermediate filament cytoskeleton    Cytoskeletal structure made from intermediate filaments, typically organized in the cytosol as an extended system that stretches from the nuclear envelope to the plasma membrane. Some intermediate filaments run parallel to the cell surface, while others traverse the cytosol; together they form an internal framework that helps support the shape and resilience of the cell.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.

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