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(-) Description

Title :  SOLUTION STRUCTURE OF THE SH3 DOMAIN OF THE SIGNAL TRANSDUCING ADAPTOR MOLECULE 2
 
Authors :  E. Chikayama, T. Kigawa, M. Sato, S. Koshiba, M. Inoue, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  26 Apr 05  (Deposition) - 26 Oct 05  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Sh3 Domain, Signal Transducing Adaptor Molecule, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. Chikayama, T. Kigawa, M. Sato, S. Koshiba, M. Inoue, S. Yokoyama
Solution Structure Of The Sh3 Domain Of The Signal Transducing Adaptor Molecule 2
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SIGNAL TRANSDUCING ADAPTER MOLECULE 2
    ChainsA
    EngineeredYES
    Expression System PlasmidP040705-10
    Expression System Vector TypePLASMID
    FragmentSH3 DOMAIN
    GeneSTAM2
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsCELL-FREE PROTEIN SYNTHESIS
    SynonymSTAM-2, SIGNAL TRANSDUCING ADAPTOR MOLECULE 2A

 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 1X2Q)

(-) Sites  (0, 0)

(no "Site" information available for 1X2Q)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1X2Q)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1X2Q)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1X2Q)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SH3PS50002 Src homology 3 (SH3) domain profile.STAM2_HUMAN202-261  1A:15-74

(-) Exons   (7, 7)

NMR Structure (7, 7)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002639041aENSE00001351655chr2:153032506-153032117390STAM2_HUMAN1-14140--
1.2aENST000002639042aENSE00001070314chr2:153006743-15300665985STAM2_HUMAN14-42290--
1.3ENST000002639043ENSE00000964279chr2:153004814-15300473976STAM2_HUMAN42-67260--
1.4ENST000002639044ENSE00000778033chr2:153004636-15300453899STAM2_HUMAN68-100330--
1.5ENST000002639045ENSE00000840594chr2:153003822-153003676147STAM2_HUMAN101-149491A:1-22
1.6ENST000002639046ENSE00000778050chr2:153001471-15300140270STAM2_HUMAN150-173241A:3-75
1.8cENST000002639048cENSE00001070312chr2:153000527-153000341187STAM2_HUMAN173-235631A:8-4841
1.9ENST000002639049ENSE00001070310chr2:152992117-15299202395STAM2_HUMAN235-267331A:48-8033
1.10ENST0000026390410ENSE00000778064chr2:152989998-15298991683STAM2_HUMAN267-294281A:80-834
1.11ENST0000026390411ENSE00000778067chr2:152989774-15298968788STAM2_HUMAN295-324300--
1.12aENST0000026390412aENSE00000840600chr2:152988682-15298862855STAM2_HUMAN324-342191A:84-852
1.13aENST0000026390413aENSE00000840601chr2:152982893-152982740154STAM2_HUMAN342-393521A:86-883
1.14bENST0000026390414bENSE00000778080chr2:152980449-152980280170STAM2_HUMAN394-450570--
1.15bENST0000026390415bENSE00001296024chr2:152977316-1529733154002STAM2_HUMAN450-525760--

(-) 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:88
 aligned with STAM2_HUMAN | O75886 from UniProtKB/Swiss-Prot  Length:525

    Alignment length:243
                                   156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386   
          STAM2_HUMAN   147 GSQTVSAAAKNGTSSNKNKEDEDIAKAIELSLQEQKQQHTETKSLYPSSEIQLNNKVARKVRALYDFEAVEDNELTFKHGEIIIVLDDSDANWWKGENHRGIGLFPSNFVTTNLNIETEAAAVDKLNVIDDDVEEIKKSEPEPVYIDEDKMDRALQVLQSIDPTDSKPDSQDLLDLEDICQQMGPMIDEKLEEIDRKHSELSELNVKVLEALELYNKLVNEAPVYSVYSKLHPPAHYPPASSG 389
               SCOP domains d1        x2qa_                                  A: automated matches                                                                                                                                                                               SCOP domains
               CATH domains 1x        2qA00                                  A:1-88 SH3 Domains                                                                                                                                                                                 CATH domains
               Pfam domains -------------------------------------------------------------SH3_1-1x2qA01 A:21-66                         ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..--------.....---------------------------------..........eeeee..................eeeeee......eeeee..eeeeehhh.ee.............-----------------------------------------------------------..-------------------------------------------------------... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------SH3  PDB: A:15-74 UniProt: 202-261                          -------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.5Exon 1.6  PDB: A:3-7    ---------------------------------------------------------------------------------------------Exon 1.10  PDB: A:80-83     Exon 1.11  PDB: -             -----------------Exon 1.13a  PDB: A:86-88 UniProt: 342-393        Transcript 1 (1)
           Transcript 1 (2) --------------------------Exon 1.8c  PDB: A:8-48 UniProt: 173-235 [INCOMPLETE]           ----------------------------------------------------------------------------------------Exon 1.12a         ----------------------------------------------- Transcript 1 (2)
           Transcript 1 (3) ----------------------------------------------------------------------------------------Exon 1.9  PDB: A:48-80           -------------------------------------------------------------------------------------------------------------------------- Transcript 1 (3)
                 1x2q A   1 GS--------SGSSG---------------------------------SEIQLNNKVARKVRALYDFEAVEDNELTFKHGEIIIVLDDSDANWWKGENHRGIGLFPSNFVTTNLNIETEAAAVS-----------------------------------------------------------GP-------------------------------------------------------SSG  88
                             |       -|   |    -         -         -        |9        19        29        39        49        59        69        79   |     -         -         -         -         -         -   ||    -         -         -         -         -         -|  
                             2        3   7                                 8                                                                         83                                                          84|                                                      86  
                                                                                                                                                                                                                   85                                                          

   Legend:   → Mismatch (orange background)
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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
(-)
Clan: SH3 (175)

(-) Gene Ontology  (16, 16)

NMR Structure(hide GO term definitions)
Chain A   (STAM2_HUMAN | O75886)
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).
biological process
    GO:0006914    autophagy    The process in which cells digest parts of their own cytoplasm; allows for both recycling of macromolecular constituents under conditions of cellular stress and remodeling the intracellular structure for cell differentiation.
    GO:0016197    endosomal transport    The directed movement of substances into, out of, or mediated by an endosome, a membrane-bounded organelle that carries materials newly ingested by endocytosis. It passes many of the materials to lysosomes for degradation.
    GO:0006886    intracellular protein transport    The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell.
    GO:0036258    multivesicular body assembly    The aggregation, arrangement and bonding together of a set of components to form a multivesicular body, a type of late endosome in which regions of the limiting endosomal membrane invaginate to form internal vesicles; membrane proteins that enter the internal vesicles are sequestered from the cytoplasm.
    GO:0042059    negative regulation of epidermal growth factor receptor signaling pathway    Any process that stops, prevents, or reduces the frequency, rate or extent of epidermal growth factor receptor signaling pathway activity.
    GO:0015031    protein transport    The directed movement of proteins 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:0033565    ESCRT-0 complex    A protein complex required for the recycling of Golgi proteins, formation of lumenal membranes and sorting of ubiquitinated proteins into those membranes. This complex includes Vps1p and Hse1p in yeast and the Hrs and STAM proteins in mammals.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0031901    early endosome membrane    The lipid bilayer surrounding an early endosome.
    GO:0005768    endosome    A vacuole to which materials ingested by endocytosis are delivered.
    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:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        STAM2_HUMAN | O758861x5b 2l0t 5crv 5ixf

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