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(-) Description

Title :  SOLUTION STRUCTURE OF THE HUMAN DDEF1 SH3 DOMAIN
 
Authors :  S. Kaieda, C. Matsui, Y. Mimori-Kiyosue, T. Ikegami
Date :  14 Dec 09  (Deposition) - 07 Jul 10  (Release) - 07 Jul 10  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Sh3 Domain, Gap, Gtpase Activation, Membrane, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Kaieda, C. Matsui, Y. Mimori-Kiyosue, T. Ikegami
Structural Basis Of The Recognition Of The Samp Motif Of Adenomatous Polyposis Coli By The Src-Homology 3 Domain.
Biochemistry V. 49 5143 2010
PubMed-ID: 20509626  |  Reference-DOI: 10.1021/BI100563Z

(-) Compounds

Molecule 1 - ARF-GAP WITH SH3 DOMAIN, ANK REPEAT AND PH DOMAIN- CONTAINING PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector: PET32A
    Expression System Vector Type: VECTOR
    Fragment: UNP RESIDUES 1069-1129
    Gene: ASAP1, DDEF1, KIAA1249
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DDEF1_SH3, 130 KDA PHOSPHATIDYLINOSITOL 4,5-BIPHOSPHATE- DEPENDENT ARF1 GTPASE-ACTIVATING PROTEIN, PIP2-DEPENDENT ARF1 GAP, ADP-RIBOSYLATION FACTOR-DIRECTED GTPASE-ACTIVATING PROTEIN 1, ARF GTPASE-ACTIVATING PROTEIN 1, DEVELOPMENT AND DIFFERENTIATION- ENHANCING FACTOR 1, DIFFERENTIATION-ENHANCING FACTOR 1, DEF-1

 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 2RQT)

(-) Sites  (0, 0)

(no "Site" information available for 2RQT)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2RQT)

(-) Exons   (0, 0)

(no "Exon" information available for 2RQT)

(-) 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:61
 aligned with ASAP1_HUMAN | Q9ULH1 from UniProtKB/Swiss-Prot  Length:1129

    Alignment length:61
                                  1078      1088      1098      1108      1118      1128 
         ASAP1_HUMAN   1069 VRRVKTIYDCQADNDDELTFIEGEVIIVTGEEDQEWWIGHIEGQPERKGVFPVSFVHILSD 1129
               SCOP domains ------------------------------------------------------------- SCOP domains
               CATH domains 2rqtA00 A:1069-1129 SH3 Domains                               CATH domains
               Pfam domains ----SH3_1-2rqtA01 A:1073-1121                        -------- Pfam domains
         Sec.struct. author ..eeee..................eeeeeee....eeeeee..eeeeeeeee...eeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------- Transcript
                2rqt A 1069 VRRVKTIYDCQADNDDELTFIEGEVIIVTGEEDQEWWIGHIEGQPERKGVFPVSFVHILSD 1129
                                  1078      1088      1098      1108      1118      1128
   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  (0, 0)

(no "SCOP Domain" information available for 2RQT)

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: SH3 (175)
(-)
Family: SH3_1 (141)

(-) Gene Ontology  (13, 13)

NMR Structure(hide GO term definitions)
Chain A   (ASAP1_HUMAN | Q9ULH1)
molecular function
    GO:0005096    GTPase activator activity    Binds to and increases the activity of a GTPase, an enzyme that catalyzes the hydrolysis of GTP.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005547    phosphatidylinositol-3,4,5-trisphosphate binding    Interacting selectively and non-covalently with phosphatidylinositol-3,4,5-trisphosphate, a derivative of phosphatidylinositol in which the inositol ring is phosphorylated at the 3', 4' and 5' positions.
    GO:0005546    phosphatidylinositol-4,5-bisphosphate binding    Interacting selectively and non-covalently with phosphatidylinositol-4,5-bisphosphate, a derivative of phosphatidylinositol in which the inositol ring is phosphorylated at the 4' and 5' positions.
    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:0030030    cell projection organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a prolongation or process extending from a cell, e.g. a flagellum or axon.
    GO:0060271    cilium assembly    The assembly of a cilium, a specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface. Each cilium is bounded by an extrusion of the cytoplasmic membrane, and contains a regular longitudinal array of microtubules, anchored basally in a centriole.
    GO:0061000    negative regulation of dendritic spine development    Any process that decreases the rate, frequency, or extent of dendritic spine development, the process whose specific outcome is the progression of the dendritic spine over time, from its formation to the mature structure.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
cellular component
    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:0043197    dendritic spine    A small, membranous protrusion from a dendrite that forms a postsynaptic compartment - typically receiving input from a single presynapse. They function as partially isolated biochemical and an electrical compartments. Spine morphology is variable including "thin", "stubby", "mushroom", and "branched", with a continuum of intermediate morphologies. They typically terminate in a bulb shape, linked to the dendritic shaft by a restriction. Spine remodeling is though to be involved in synaptic plasticity.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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UniProtKB/Swiss-Prot
        ASAP1_HUMAN | Q9ULH1: 2d1x 2da0 2ed1 2rqu

(-) Related Entries Specified in the PDB File

2rqu