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Theoretical Model  (Jmol Viewer)

(-) Description

Title :  STRUCTURE OF THE ENA-VASP HOMOLOGY 1 (EVH1) DOMAIN OF HUMAN VASODILATOR-STIMULATED PHOSPHOPROTEIN (VASP) IN COMPLEX WITH SFEFPPPPTEDEL PEPTIDE (THEORETICAL MODEL)
 
Authors :  L. Ball, R. Kuhne, B. Hoffmann, A. Hafner, P. Schmieder, R. Volkmer- Engert, M. Hof, M. Wahl, J. Schneider-Mergener, U. Walter, H. Oschkinat, T. Jarchau
Date :  24 Jul 01  (Deposition) - 22 Aug 01  (Release) - 01 Apr 03  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A,B
Keywords :  Evh1, Vasp-Ena, Nmr, Poly-Proline-Binding Domain (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  L. J. Ball, R. Kuhne, B. Hoffmann, A. Hafner, P. Schmieder, R. Volkmer-Engert, M. Hof, M. Wahl, J. Schneider-Mergener, U. Walter, H. Oschkinat, T. Jarchau
Dual Epitope Recognition By The Vasp Evh1 Domain Modulates Polyproline Ligand Specificity And Binding Affinity.
Embo J. V. 19 4903 2000
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - VASODILATOR-STIMULATED PHOSPHOPROTEIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System CommonBACTERIA
    Expression System StrainBL21
    Expression System Vector TypePGEX-4T-1
    FragmentEVH1 DOMAIN
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
 
Molecule 2 - ACTA PEPTIDE
    ChainsB
    EngineeredYES
    FragmentPROLINE-RICH DOMAIN, PEPTIDE
    Other DetailsSYNTHETIC PEPTIDE
    SyntheticYES

 Structural Features

(-) Chains, Units

  
Theoretical Model 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1JNG)

(-) Sites  (0, 0)

(no "Site" information available for 1JNG)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Theoretical Model (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_048929A104TVASP_HUMANPolymorphism10415373AA104T

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 1)

Theoretical Model (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1WH1PS50229 WH1 domain profile.VASP_HUMAN1-113  1A:1-113

(-) Exons   (4, 4)

Theoretical Model (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000002459321ENSE00001375539chr19:46010688-46011034347VASP_HUMAN1-221A:1-22
1.2ENST000002459322ENSE00001742627chr19:46020921-46021092172VASP_HUMAN2-59581A:2-5958
1.3ENST000002459323ENSE00000858230chr19:46021187-46021352166VASP_HUMAN60-115561A:60-11556
1.4ENST000002459324ENSE00000858231chr19:46024580-4602466485VASP_HUMAN115-143291A:115-1151
1.5ENST000002459325ENSE00000858232chr19:46025426-4602547550VASP_HUMAN143-160180--
1.6ENST000002459326ENSE00000858233chr19:46025598-46025839242VASP_HUMAN160-240810--
1.7ENST000002459327ENSE00001635606chr19:46025976-46026076101VASP_HUMAN241-274340--
1.8ENST000002459328ENSE00000858235chr19:46026902-4602695352VASP_HUMAN274-291180--
1.9ENST000002459329ENSE00000858236chr19:46027099-4602713537VASP_HUMAN292-304130--
1.10ENST0000024593210ENSE00000858237chr19:46027355-4602740046VASP_HUMAN304-319160--
1.11ENST0000024593211ENSE00000858238chr19:46027828-4602791891VASP_HUMAN319-349310--
1.12ENST0000024593212ENSE00000858239chr19:46029204-4602926158VASP_HUMAN350-369200--
1.13ENST0000024593213ENSE00001112676chr19:46029398-46030236839VASP_HUMAN369-380120--

(-) Sequences/Alignments

Theoretical Model
   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:115
 aligned with VASP_HUMAN | P50552 from UniProtKB/Swiss-Prot  Length:380

    Alignment length:115
                                    10        20        30        40        50        60        70        80        90       100       110     
           VASP_HUMAN     1 MSETVICSSRATVMLYDDGNKRWLPAGTGPQAFSRVQIYHNPTANSFRVVGRKMQPDQQVVINCAIVRGVKYNQATPNFHQWRDARQVWGLNFGSKEDAAQFAAGMASALEALEG 115
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee..ee.................eeeeeeeehhhheeeeeeee......eeeeeee............eeeee....eeeeee.hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------T----------- SAPs(SNPs)
                    PROSITE WH1  PDB: A:1-113 UniProt: 1-113                                                                                 -- PROSITE
           Transcript 1 (1) 1.---------------------------------------------------------Exon 1.3  PDB: A:60-115 UniProt: 60-115                  Transcript 1 (1)
           Transcript 1 (2) -Exon 1.2  PDB: A:2-59 UniProt: 2-59                       -------------------------------------------------------1 Transcript 1 (2)
                 1jng A   1 MSETVICSSRATVMLYDDGNKRWLPAGTGPQAFSRVQIYHNPTANSFRVVGRKMQPDQQVVINCAIVRGVKYNQATPNFHQWRDARQVWGLNFGSKEDAAQFAAGMASALEALEG 115
                                    10        20        30        40        50        60        70        80        90       100       110     

Chain B from PDB  Type:PROTEIN  Length:13
                                             
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author ............. Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                 1jng B 116 SFEFPPPPTEDEL 128
                                   125   

   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 1JNG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1JNG)

(-) Gene Ontology  (26, 26)

Theoretical Model(hide GO term definitions)
Chain A   (VASP_HUMAN | P50552)
molecular function
    GO:0017124    SH3 domain binding    Interacting selectively and non-covalently with a SH3 domain (Src homology 3) of a protein, small protein modules containing approximately 50 amino acid residues found in a great variety of intracellular or membrane-associated proteins.
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
    GO:0005522    profilin binding    Interacting selectively and non-covalently with profilin, an actin-binding protein that forms a complex with G-actin and prevents it from polymerizing to form F-actin.
    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:0030036    actin cytoskeleton organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins.
    GO:0008154    actin polymerization or depolymerization    Assembly or disassembly of actin filaments by the addition or removal of actin monomers from a filament.
    GO:0007411    axon guidance    The chemotaxis process that directs the migration of an axon growth cone to a specific target site in response to a combination of attractive and repulsive cues.
    GO:0034329    cell junction assembly    A cellular process that results in the aggregation, arrangement and bonding together of a set of components to form a cell junction.
    GO:0001843    neural tube closure    The last step in the formation of the neural tube, where the paired neural folds are brought together and fuse at the dorsal midline.
    GO:0030838    positive regulation of actin filament polymerization    Any process that activates or increases the frequency, rate or extent of actin polymerization.
    GO:0051289    protein homotetramerization    The formation of a protein homotetramer, a macromolecular structure consisting of four noncovalently associated identical subunits.
cellular component
    GO:0015629    actin cytoskeleton    The part of the cytoskeleton (the internal framework of a cell) composed of actin and associated proteins. Includes actin cytoskeleton-associated complexes.
    GO:0005923    bicellular tight junction    An occluding cell-cell junction that is composed of a branching network of sealing strands that completely encircles the apical end of each cell in an epithelial sheet; the outer leaflets of the two interacting plasma membranes are seen to be tightly apposed where sealing strands are present. Each sealing strand is composed of a long row of transmembrane adhesion proteins embedded in each of the two interacting plasma membranes.
    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:0005856    cytoskeleton    Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
    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:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0030175    filopodium    Thin, stiff, actin-based protrusion extended by the leading edge of a motile cell such as a crawling fibroblast or amoeba, or an axonal or dendritic growth cone, or a dendritic shaft.
    GO:0031527    filopodium membrane    The portion of the plasma membrane surrounding a filopodium.
    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:0030027    lamellipodium    A thin sheetlike process extended by the leading edge of a migrating cell or extending cell process; contains a dense meshwork of actin filaments.
    GO:0031258    lamellipodium membrane    The portion of the plasma membrane surrounding a lamellipodium.
    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
        VASP_HUMAN | P505521egx 1usd 1use 2pav 2pbd 3chw

(-) Related Entries Specified in the PDB File

1egx VASP EVH1 DOMAIN