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(-) Description

Title :  SOLUTION STRUCTURE OF THE RA DOMAIN OF HUMAN GRB7 PROTEIN
 
Authors :  H. Li, T. Tomizawa, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  28 May 04  (Deposition) - 28 Nov 04  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Ra Domain, Grb7, Structural Genomics, Riken Structural Genomics/Proteomics Initiative, Rsgi, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Li, T. Tomizawa, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama
Solution Structure Of The Ra Domain Of Human Grb7 Protein
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GROWTH FACTOR RECEPTOR-BOUND PROTEIN 7
    ChainsA
    EngineeredYES
    Expression System PlasmidP040223-63
    Expression System Vector TypePLASMID
    FragmentRA DOMAIN
    GeneIMS CDNA HEP10521
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsCELL-FREE PROTEIN SYNTHESIS
    SynonymGRB7, GRB7 ADAPTER PROTEIN, EPIDERMAL GROWTH FACTOR RECEPTOR GRB-7, B47

 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 1WGR)

(-) Sites  (0, 0)

(no "Site" information available for 1WGR)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RAPS50200 Ras-associating (RA) domain profile.GRB7_HUMAN100-186  1A:8-94

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.2ENST000003942112ENSE00001517752chr17:37894576-3789464570GRB7_HUMAN-00--
1.4aENST000003942114aENSE00002183795chr17:37898505-37898709205GRB7_HUMAN1-52520--
1.5aENST000003942115aENSE00001227713chr17:37898819-37898969151GRB7_HUMAN52-102511A:1-10 (gaps)17
1.5dENST000003942115dENSE00000950638chr17:37899151-37899307157GRB7_HUMAN103-155531A:11-6353
1.6aENST000003942116aENSE00000950639chr17:37899433-37899554122GRB7_HUMAN155-195411A:63-97 (gaps)41
1.6dENST000003942116dENSE00000950640chr17:37899646-3789972378GRB7_HUMAN196-221261A:98-1003
1.7aENST000003942117aENSE00000950641chr17:37900323-37900460138GRB7_HUMAN222-267460--
1.8ENST000003942118ENSE00000950642chr17:37900806-37900916111GRB7_HUMAN268-304370--
1.9ENST000003942119ENSE00000950643chr17:37901139-3790123799GRB7_HUMAN305-337330--
1.10ENST0000039421110ENSE00000950644chr17:37901496-3790157681GRB7_HUMAN338-364270--
1.11ENST0000039421111ENSE00000950645chr17:37901675-37901791117GRB7_HUMAN365-403390--
1.12ENST0000039421112ENSE00000950646chr17:37901981-3790204161GRB7_HUMAN404-424210--
1.13ENST0000039421113ENSE00000950647chr17:37902166-3790225388GRB7_HUMAN424-453300--
1.14ENST0000039421114ENSE00001651412chr17:37902362-3790245594GRB7_HUMAN453-484320--
1.15cENST0000039421115cENSE00001850980chr17:37903004-37903538535GRB7_HUMAN485-532480--

(-) 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:100
 aligned with GRB7_HUMAN | Q14451 from UniProtKB/Swiss-Prot  Length:532

    Alignment length:113
                                    95       105       115       125       135       145       155       165       175       185       195   
           GRB7_HUMAN    86 GPSSARGLLPRDASRPHVVKVYSEDGACRSVEVAAGATARHVCEMLVQRAHALSDETWGLVECHPHLALERGLEDHESVVEVQAAWPVGGDSRFVFRKNFAKYELFKSSPHSL 198
               SCOP domains d1wgra_        A: Growth factor receptor-bound protein 7, GRB-7                                                   SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------RA-1wgrA01 A:8-94                                                                      ------------ Pfam domains
         Sec.struct. author .......-------..eeeeeee....eeeeee.....hhhhhhhhh............eeeee....eeeee.....hhhhhhh.......eeee.....------...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------RA  PDB: A:8-94 UniProt: 100-186                                                       ------------ PROSITE
           Transcript 1 (1) Exon 1.5a        Exon 1.5d  PDB: A:11-63 UniProt: 103-155             ----------------------------------------1.6 Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------------------------------------Exon 1.6a  PDB: A:63-97 (gaps)           --- Transcript 1 (2)
                 1wgr A   1 GSSGSSG-------RPHVVKVYSEDGACRSVEVAAGATARHVCEMLVQRAHALSDETWGLVECHPHLALERGLEDHESVVEVQAAWPVGGDSRFVFRKNFA------SGPSSG 100
                                  |  -    |   13        23        33        43        53        63        73        83        93|      |97   
                                  7       8                                                                                    94     95     

   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  (0, 0)

(no "CATH Domain" information available for 1WGR)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: Ubiquitin (279)

(-) Gene Ontology  (23, 23)

NMR Structure(hide GO term definitions)
Chain A   (GRB7_HUMAN | Q14451)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0005070    SH3/SH2 adaptor activity    Interacting selectively and non-covalently and simultaneously with one or more signal transduction molecules, usually acting as a scaffold to bring these molecules into close proximity either using their own SH2/SH3 domains (e.g. Grb2) or those of their target molecules (e.g. SAM68).
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0008289    lipid binding    Interacting selectively and non-covalently with a lipid.
    GO:0035091    phosphatidylinositol binding    Interacting selectively and non-covalently with any inositol-containing glycerophospholipid, i.e. phosphatidylinositol (PtdIns) and its phosphorylated derivatives.
    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:0019901    protein kinase binding    Interacting selectively and non-covalently with a protein kinase, any enzyme that catalyzes the transfer of a phosphate group, usually from ATP, to a protein substrate.
biological process
    GO:0038128    ERBB2 signaling pathway    A series of molecular signals initiated by binding of a ligand to a member of the ERBB family of receptors on the surface of a cell, where the signal is transmitted by ERBB2. The pathway ends with regulation of a downstream cellular process, e.g. transcription. ERBB2 receptors are themselves unable to bind to ligands, but act as a signal-amplifying tyrosine kinase within a heterodimeric pair.
    GO:0007173    epidermal growth factor receptor signaling pathway    A series of molecular signals initiated by binding of a ligand to the tyrosine kinase receptor EGFR (ERBB1) on the surface of a cell. The pathway ends with regulation of a downstream cellular process, e.g. transcription.
    GO:0050900    leukocyte migration    The movement of a leukocyte within or between different tissues and organs of the body.
    GO:0017148    negative regulation of translation    Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.
    GO:0030335    positive regulation of cell migration    Any process that activates or increases the frequency, rate or extent of cell migration.
    GO:0009967    positive regulation of signal transduction    Any process that activates or increases the frequency, rate or extent of signal transduction.
    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.
    GO:0034063    stress granule assembly    The aggregation, arrangement and bonding together of proteins and RNA molecules to form a stress granule.
cellular component
    GO:0030054    cell junction    A cellular component that forms a specialized region of connection between two or more cells or between a cell and the extracellular matrix. At a cell junction, anchoring proteins extend through the plasma membrane to link cytoskeletal proteins in one cell to cytoskeletal proteins in neighboring cells or to proteins in the extracellular matrix.
    GO:0042995    cell projection    A prolongation or process extending from a cell, e.g. a flagellum or axon.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0010494    cytoplasmic stress granule    A dense aggregation in the cytosol composed of proteins and RNAs that appear when the cell is under stress.
    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:0005925    focal adhesion    Small region on the surface of a cell that anchors the cell to the extracellular matrix and that forms a point of termination of actin filaments.
    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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 Related Entries

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

UniProtKB/Swiss-Prot
        GRB7_HUMAN | Q144511mw4 2l4k 2qms 3pqz 4wwq 4x6s 5d0j 5eel 5eeq

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