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(-) Description

Title :  NMR STRUCTURES OF SAM DOMAIN OF DELETED IN LIVER CANCER 2 (DLC2)
 
Authors :  H. Y. Li, K. L. Fung, D. Y. Jin, S. S. Chung, B. C. Ko, H. Z. Sun
Date :  06 Jun 06  (Deposition) - 15 May 07  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Helical Bundle, Lipid Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Li, K. L. Fung, D. Y. Jin, S. S. Chung, Y. P. Ching, I. O. Ng, K. H. Sze, B. C. Ko, H. Sun
Solution Structures, Dynamics, And Lipid-Binding Of The Sterile Alpha-Motif Domain Of The Deleted In Liver Cancer 2
Proteins V. 67 1154 2007
PubMed-ID: 17380510  |  Reference-DOI: 10.1002/PROT.21361
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - STAR-RELATED LIPID TRANSFER PROTEIN 13
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET-32
    Expression System StrainDE3
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentSAM DOMAIN
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymDELETED IN LIVER CANCER PROTEIN 2, DLC2, STARD13, START DOMAIN-CONTAINING PROTEIN 13, 46H23.2, RHO GTPASE- ACTIVATING PROTEIN

 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 2H80)

(-) Sites  (0, 0)

(no "Site" information available for 2H80)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2H80)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2H80)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2H80)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2H80)

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003369341aENSE00002177288chr13:33859892-33859607286STA13_HUMAN1-57571A:1-18 (gaps)32
1.4bENST000003369344bENSE00001798260chr13:33741759-3374168872STA13_HUMAN57-81251A:18-4225
1.5ENST000003369345ENSE00001746318chr13:33739555-3373947482STA13_HUMAN81-108281A:42-6928
1.7ENST000003369347ENSE00001619826chr13:33716510-3371644764STA13_HUMAN108-129221A:69-8113
1.9ENST000003369349ENSE00000907354chr13:33704426-337030661361STA13_HUMAN130-5834540--
1.10ENST0000033693410ENSE00000907353chr13:33701683-33701510174STA13_HUMAN583-641590--
1.11ENST0000033693411ENSE00000907352chr13:33700377-33700218160STA13_HUMAN641-694540--
1.12ENST0000033693412ENSE00000907350chr13:33692400-33692202199STA13_HUMAN695-761670--
1.14bENST0000033693414bENSE00000907348chr13:33687068-33686858211STA13_HUMAN761-831710--
1.15bENST0000033693415bENSE00000907347chr13:33686029-33685915115STA13_HUMAN831-869390--
1.16ENST0000033693416ENSE00000907345chr13:33685044-33684823222STA13_HUMAN870-943740--
1.17ENST0000033693417ENSE00000907343chr13:33684227-33684010218STA13_HUMAN944-1016730--
1.18ENST0000033693418ENSE00000907341chr13:33681071-33680895177STA13_HUMAN1016-1075600--
1.19aENST0000033693419aENSE00001872311chr13:33679847-336773072541STA13_HUMAN1075-1113390--

(-) 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:81
 aligned with STA13_HUMAN | Q9Y3M8 from UniProtKB/Swiss-Prot  Length:1113

    Alignment length:95
                                    35        45        55        65        75        85        95       105       115     
          STA13_HUMAN    26 MYLRFDQTTRRSPYRMSRILARHQLVTKIQQEIEAKEACDWLRAAGFPQYAQLYEDSQFPINIVAVKNDHDFLEKDLVEPLCRRLNTLNKCASMK 120
               SCOP domains ------------------------d2h80a1 A:11-81 Deleted in Liver Cancer 2, DLC2                         SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........--------------.....hhhhhhhhhhhhhhhh.hhhhhhh........hhhhhhh........hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1a  PDB: A:1-18 (gaps)   -----------------------Exon 1.5  PDB: A:42-69      ------------ Transcript 1 (1)
           Transcript 1 (2) -------------------------------Exon 1.4b  PDB: A:18-42  --------------------------Exon 1.7      Transcript 1 (2)
                 2h80 A   1 MHHHHHHSSG--------------LVPRGSQEIEAKEACDWLRAAGFPQYAQLYEDSQFPINIVAVKNDHDFLEKDLVEPLCRRLNTLNKCASMK  81
                                    10         -    |   16        26        36        46        56        66        76     
                                    10             11                                                                      

   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 2H80)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2H80)

(-) Gene Ontology  (15, 15)

NMR Structure(hide GO term definitions)
Chain A   (STA13_HUMAN | Q9Y3M8)
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:0008289    lipid binding    Interacting selectively and non-covalently with a lipid.
    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:0043542    endothelial cell migration    The orderly movement of an endothelial cell into the extracellular matrix to form an endothelium.
    GO:0097498    endothelial tube lumen extension    Any endothelial tube morphogenesis process by which the tube is increased in length.
    GO:0090051    negative regulation of cell migration involved in sprouting angiogenesis    Any process that decreases the frequency, rate or extent of cell migration involved in sprouting angiogenesis. Cell migration involved in sprouting angiogenesis is the orderly movement of endothelial cells into the extracellular matrix in order to form new blood vessels contributing to the process of sprouting angiogenesis.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:0051056    regulation of small GTPase mediated signal transduction    Any process that modulates the frequency, rate or extent of small GTPase mediated 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.
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:0005811    lipid droplet    An intracellular non-membrane-bounded organelle comprising a matrix of coalesced lipids surrounded by a phospholipid monolayer. May include associated proteins.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0031966    mitochondrial membrane    Either of the lipid bilayers that surround the mitochondrion and form the mitochondrial envelope.
    GO:0005739    mitochondrion    A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

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 Related Entries

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

UniProtKB/Swiss-Prot
        STA13_HUMAN | Q9Y3M82jw2 2pso

(-) Related Entries Specified in the PDB File

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