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(-) Description

Title :  SOLUTION STRUCTURES OF THE SH3 DOMAIN OF HUMAN KIAA0418
 
Authors :  M. Sato, N. Tochio, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  23 Mar 07  (Deposition) - 25 Sep 07  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Sh3 Domain, 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 :  M. Sato, N. Tochio, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama
Solution Structures Of The Sh3 Domain Of Human Kiaa0418
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SH3 AND PX DOMAIN-CONTAINING PROTEIN 2A
    ChainsA
    EngineeredYES
    Expression System PlasmidP050919-08
    Expression System Vector TypePLASMID
    FragmentSH3 DOMAIN
    GeneKIAA0418
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsCELL-FREE PROTEIN SYNTHESIS
    SynonymKIAA0418 PROTEIN, SH3 MULTIPLE DOMAINS PROTEIN 1, FIVE SH3 DOMAIN-CONTAINING PROTEIN, ADAPTOR PROTEIN TKS5

 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 2EKH)

(-) Sites  (0, 0)

(no "Site" information available for 2EKH)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SH3PS50002 Src homology 3 (SH3) domain profile.SPD2A_HUMAN166-225
266-325
448-507
851-899
1086-1133
  1-
-
-
A:17-65
-

(-) Exons   (1, 1)

NMR Structure (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003697741aENSE00001611723chr10:105615301-105614953349SPD2A_HUMAN1-24240--
1.2aENST000003697742aENSE00001385766chr10:105561120-10556104081SPD2A_HUMAN25-51270--
1.3ENST000003697743ENSE00001627592chr10:105526927-10552685276SPD2A_HUMAN52-77260--
1.4ENST000003697744ENSE00001274601chr10:105495566-10549549077SPD2A_HUMAN77-102260--
1.5ENST000003697745ENSE00000811670chr10:105484119-10548402892SPD2A_HUMAN103-133310--
1.8ENST000003697748ENSE00001274660chr10:105452814-10545278629SPD2A_HUMAN133-143110--
1.9ENST000003697749ENSE00001720125chr10:105428410-10542836645SPD2A_HUMAN143-158160--
1.10ENST0000036977410ENSE00001785452chr10:105420872-105420741132SPD2A_HUMAN158-202450--
1.11ENST0000036977411ENSE00001177607chr10:105386959-105386846114SPD2A_HUMAN202-240390--
1.12ENST0000036977412ENSE00000987725chr10:105382310-10538222784SPD2A_HUMAN240-268290--
1.13ENST0000036977413ENSE00001177600chr10:105377071-105376954118SPD2A_HUMAN268-307400--
1.14ENST0000036977414ENSE00001177595chr10:105372947-105372610338SPD2A_HUMAN307-4201140--
1.15ENST0000036977415ENSE00001177588chr10:105371387-10537133850SPD2A_HUMAN420-436170--
1.16ENST0000036977416ENSE00000723396chr10:105365674-105365555120SPD2A_HUMAN437-476400--
1.17dENST0000036977417dENSE00001939716chr10:105363546-1053537849763SPD2A_HUMAN477-11336571A:1-80 (gaps)103

(-) 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:80
 aligned with SPD2A_HUMAN | Q5TCZ1 from UniProtKB/Swiss-Prot  Length:1133

    Alignment length:103
                                   823       833       843       853       863       873       883       893       903       913   
          SPD2A_HUMAN   814 GSRRSSSDLITLPATTPPCPTKKEWEGPATSYMTCSAYQKVQDSEISFPAGVEVQVLEKQESGWWYVRFGELEGWAPSHYLVLDENEQPDPSGKELDTVPAKG 916
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......--------------------.-.eeeee..................eeeeeee....eeeeee..eeeeee...ee...............--.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------SH3  PDB: A:17-65 UniProt: 851-899               ----------------- PROSITE
               Transcript 1 Exon 1.17d  PDB: A:1-80 (gaps) UniProt: 477-1133 [INCOMPLETE]                                           Transcript 1
                 2ekh A   1 GSSGSS--------------------G-ATSYMTCSAYQKVQDSEISFPAGVEVQVLEKQESGWWYVRFGELEGWAPSHYLVLDENEQPDPSGKESG--PSSG  80
                                 |   -         -      | |9        19        29        39        49        59        69      | 77   
                                 6                    7 8                                                                  76 77   

   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 2EKH)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2EKH)

(-) Gene Ontology  (9, 9)

NMR Structure(hide GO term definitions)
Chain A   (SPD2A_HUMAN | Q5TCZ1)
molecular function
    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).
biological process
    GO:0072675    osteoclast fusion    The plasma membrane fusion process that results in fusion of mononuclear osteoclasts to form a multinuclear osteoclast.
    GO:0072593    reactive oxygen species metabolic process    The chemical reactions and pathways involving a reactive oxygen species, any molecules or ions formed by the incomplete one-electron reduction of oxygen. They contribute to the microbicidal activity of phagocytes, regulation of signal transduction and gene expression, and the oxidative damage to biopolymers.
    GO:0006801    superoxide metabolic process    The chemical reactions and pathways involving superoxide, the superoxide anion O2- (superoxide free radical), or any compound containing this species.
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:0002102    podosome    An actin-rich adhesion structure characterized by formation upon cell substrate contact and localization at the substrate-attached part of the cell, contain an F-actin-rich core surrounded by a ring structure containing proteins such as vinculin and talin, and have a diameter of 0.5 mm.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SPD2A_HUMAN | Q5TCZ12dnu 2ega 2egc

(-) Related Entries Specified in the PDB File

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