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(-) Description

Title :  NMR SOLUTION STRUCTURE OF THE EH 1 DOMAIN FROM HUMAN INTERSECTIN-1 PROTEIN. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET HR3646E.
 
Authors :  J. L. Mills, A. Ghosh, E. Garcia, Q. Zhang, R. Shastry, E. L. Foote, H. Janjua, T. B. Acton, R. Xiao, J. K. Everett, G. T. Montelione, T. Szyperski, Northeast Structural Genomics Consortium (Nesg)
Date :  09 Apr 09  (Deposition) - 21 Apr 09  (Release) - 21 Apr 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Nmr, Gft Nmr, High Throughput, Nesgc, Human Intersectin-1, Alternative Splicing, Calcium, Cell Junction, Cell Projection, Coiled Coil, Endocytosis, Membrane, Phosphoprotein, Sh3 Domain, Synapse, Synaptosome, Signaling Protein, Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. L. Mills, A. Ghosh, E. Garcia, Q. Zhang, R. Shastry, E. L. Foote, H. Janjua, T. B. Acton, R. Xiao, J. K. Everett, G. T. Montelione, T. Szyperski
Nmr Solution Structure Of The Eh 1 Domain From Human Intersectin-1 Protein. Northeast Structural Genomics Consortium Target Hr3646E.
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - INTERSECTIN-1
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET14-15C
    Expression System StrainBL21
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentUNP RESIDUES 1-111
    GeneITSN1, ITSN, SH3D1A
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymSH3 DOMAIN-CONTAINING PROTEIN 1A, SH3P17

 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 2KHN)

(-) Sites  (0, 0)

(no "Site" information available for 2KHN)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (3, 3)

NMR Structure (3, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1EHPS50031 EH domain profile.ITSN1_HUMAN21-100
221-310
  1A:31-110
-
2EF_HAND_2PS50222 EF-hand calcium-binding domain profile.ITSN1_HUMAN53-88
254-289
  1A:63-98
-
3EF_HAND_1PS00018 EF-hand calcium-binding domain.ITSN1_HUMAN66-78
267-279
  1A:76-88
-

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1dENST000003813181dENSE00001867436chr21:35014764-35015019256ITSN1_HUMAN-00--
1.4aENST000003813184aENSE00002170343chr21:35091102-3509116160ITSN1_HUMAN1-10101A:11-2010
1.5ENST000003813185ENSE00001658683chr21:35093483-3509357593ITSN1_HUMAN10-41321A:20-5132
1.7ENST000003813187ENSE00001763001chr21:35094893-3509495664ITSN1_HUMAN41-62221A:51-7222
1.8cENST000003813188cENSE00002146870chr21:35107349-35107509161ITSN1_HUMAN62-116551A:72-12150
1.10aENST0000038131810aENSE00001737233chr21:35122448-35122627180ITSN1_HUMAN116-176610--
1.11ENST0000038131811ENSE00001605820chr21:35124115-3512421197ITSN1_HUMAN176-208330--
1.13ENST0000038131813ENSE00001656572chr21:35127602-35127702101ITSN1_HUMAN208-242350--
1.15ENST0000038131815ENSE00001765135chr21:35134227-3513429064ITSN1_HUMAN242-263220--
1.16ENST0000038131816ENSE00001798771chr21:35138179-35138316138ITSN1_HUMAN263-309470--
1.17ENST0000038131817ENSE00001758830chr21:35140017-35140132116ITSN1_HUMAN309-348400--
1.18cENST0000038131818cENSE00001694358chr21:35144365-35144627263ITSN1_HUMAN348-435880--
1.19bENST0000038131819bENSE00001781838chr21:35147033-35147182150ITSN1_HUMAN436-485500--
1.20bENST0000038131820bENSE00001689082chr21:35147272-35147412141ITSN1_HUMAN486-532470--
1.21ENST0000038131821ENSE00001696398chr21:35153765-3515385288ITSN1_HUMAN533-562300--
1.22ENST0000038131822ENSE00001739094chr21:35154298-35154437140ITSN1_HUMAN562-608470--
1.23bENST0000038131823bENSE00001790352chr21:35166645-35166772128ITSN1_HUMAN609-651430--
1.24aENST0000038131824aENSE00001656691chr21:35169683-35169912230ITSN1_HUMAN651-728780--
1.25aENST0000038131825aENSE00001739369chr21:35172112-35172233122ITSN1_HUMAN728-768410--
1.26aENST0000038131826aENSE00001654252chr21:35174734-3517474815ITSN1_HUMAN769-77350--
1.27aENST0000038131827aENSE00001752911chr21:35183279-35183526248ITSN1_HUMAN774-856830--
1.28aENST0000038131828aENSE00001623007chr21:35186217-35186376160ITSN1_HUMAN856-909540--
1.30bENST0000038131830bENSE00001731951chr21:35190571-35190776206ITSN1_HUMAN910-978690--
1.31ENST0000038131831ENSE00001736539chr21:35191545-3519162783ITSN1_HUMAN978-1006290--
1.32ENST0000038131832ENSE00001682088chr21:35195791-35195957167ITSN1_HUMAN1006-1061560--
1.33ENST0000038131833ENSE00001746116chr21:35199122-3519916746ITSN1_HUMAN1062-1077160--
1.34gENST0000038131834gENSE00001741289chr21:35201928-35202049122ITSN1_HUMAN1077-1117410--
1.35bENST0000038131835bENSE00001806792chr21:35206611-35206728118ITSN1_HUMAN1118-1157400--
1.36ENST0000038131836ENSE00001754465chr21:35208745-35208936192ITSN1_HUMAN1157-1221650--
1.38bENST0000038131838bENSE00001725020chr21:35229040-35229161122ITSN1_HUMAN1221-1261410--
1.39aENST0000038131839aENSE00001614241chr21:35230990-35231096107ITSN1_HUMAN1262-1297360--
1.40ENST0000038131840ENSE00001651960chr21:35237455-35237638184ITSN1_HUMAN1297-1358620--
1.41ENST0000038131841ENSE00001686265chr21:35239537-3523963599ITSN1_HUMAN1359-1391330--
1.42aENST0000038131842aENSE00001679500chr21:35247658-35247825168ITSN1_HUMAN1392-1447560--
1.43ENST0000038131843ENSE00001687726chr21:35254547-35254759213ITSN1_HUMAN1448-1518710--
1.44ENST0000038131844ENSE00001748634chr21:35255854-35255975122ITSN1_HUMAN1519-1559410--
1.45ENST0000038131845ENSE00001643657chr21:35257345-3525742783ITSN1_HUMAN1559-1587290--
1.46ENST0000038131846ENSE00001748704chr21:35257743-3525782684ITSN1_HUMAN1587-1615290--
1.47cENST0000038131847cENSE00001712802chr21:35258591-35258764174ITSN1_HUMAN1615-1673590--
1.48eENST0000038131848eENSE00001844175chr21:35260456-3527216511710ITSN1_HUMAN1673-1721490--

(-) 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:121
 aligned with ITSN1_HUMAN | Q15811 from UniProtKB/Swiss-Prot  Length:1721

    Alignment length:121
                                      1                                                                                                              
                                     -|       10        20        30        40        50        60        70        80        90       100       110 
          ITSN1_HUMAN     - ----------MAQFPTPFGGSLDIWAITVEERAKHDQQFHSLKPISGFITGDQARNFFFQSGLPQPVLAQIWALADMNNDGRMDQVEFSIAMKLIKLKLQGYQLPSALPPVMKQQPVAISS 111
               SCOP domains d2khna_ A: automated matches                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------efhand_3-2khnA01 A:26-118                                                                    --- Pfam domains
         Sec.struct. author ...........................hhhhhhhhhhhhhhh.......hhhhhhhhhhhh..hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh.........hhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ------------------------------EH  PDB: A:31-110 UniProt: 21-100                                               ----------- PROSITE (1)
                PROSITE (2) --------------------------------------------------------------EF_HAND_2  PDB: A:63-98             ----------------------- PROSITE (2)
                PROSITE (3) ---------------------------------------------------------------------------EF_HAND_1    --------------------------------- PROSITE (3)
           Transcript 1 (1) ----------Exon 1.4a ------------------------------Exon 1.7  PDB: A:51-72------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -------------------Exon 1.5  PDB: A:20-51          --------------------Exon 1.8c  PDB: A:72-121 UniProt: 62-116           Transcript 1 (2)
                 2khn A   1 MGHHHHHHSHMAQFPTPFGGSLDTWAITVEERAKHDQQFHSLKPISGFITGDQARNFFFQSGLPQPVLAQIWALADMNNDGRMDQVEFSIAMKLIKLKLQGYQLPSALPPVMKQQPVAISS 121
                                    10        20        30        40        50        60        70        80        90       100       110       120 

   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 2KHN)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: EF_hand (270)

(-) Gene Ontology  (31, 31)

NMR Structure(hide GO term definitions)
Chain A   (ITSN1_HUMAN | Q15811)
molecular function
    GO:0005089    Rho guanyl-nucleotide exchange factor activity    Stimulates the exchange of guanyl nucleotides associated with a GTPase of the Rho family. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase.
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0005085    guanyl-nucleotide exchange factor activity    Stimulates the exchange of guanyl nucleotides associated with a GTPase. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase.
    GO:0019209    kinase activator activity    Binds to and increases the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0070064    proline-rich region binding    Interacting selectively and non-covalently with a proline-rich region, i.e. a region that contains a high proportion of proline residues, in a protein.
    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:0032947    protein complex scaffold activity    A structural molecule activity that provides a physical support for the assembly of a multiprotein complex. The scaffold may or may not be part of the final complex.
biological process
    GO:0006897    endocytosis    A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle.
    GO:0048013    ephrin receptor signaling pathway    The series of molecular signals generated as a consequence of an ephrin receptor binding to an ephrin.
    GO:0035556    intracellular signal transduction    The process in which a signal is passed on to downstream components within the cell, which become activated themselves to further propagate the signal and finally trigger a change in the function or state of the cell.
    GO:0043524    negative regulation of neuron apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process in neurons.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:0043065    positive regulation of apoptotic process    Any process that activates or increases the frequency, rate or extent of cell death by apoptotic process.
    GO:0042327    positive regulation of phosphorylation    Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to a molecule.
    GO:0051897    positive regulation of protein kinase B signaling    Any process that activates or increases the frequency, rate or extent of protein kinase B signaling, a series of reactions mediated by the intracellular serine/threonine kinase protein kinase B.
    GO:0035023    regulation of Rho protein signal transduction    Any process that modulates the frequency, rate or extent of Rho protein signal transduction.
    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:0007264    small GTPase mediated signal transduction    Any series of molecular signals in which a small monomeric GTPase relays one or more of the signals.
    GO:0048488    synaptic vesicle endocytosis    Clathrin-mediated endocytosis of presynaptic membrane that recycles synaptic vesicle membrane and its components following synaptic vesicle exocytosis. This process starts with coating of the membrane with adaptor proteins and clathrin prior to invagination and ends when uncoating has finished.
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:0005905    clathrin-coated pit    A part of the endomembrane system in the form of an invagination of a membrane upon which a clathrin coat forms, and that can be converted by vesicle budding into a clathrin-coated vesicle. Coated pits form on the plasma membrane, where they are involved in receptor-mediated selective transport of many proteins and other macromolecules across the cell membrane, in the trans-Golgi network, and on some endosomes.
    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:0030139    endocytic vesicle    A membrane-bounded intracellular vesicle formed by invagination of the plasma membrane around an extracellular substance. Endocytic vesicles fuse with early endosomes to deliver the cargo for further sorting.
    GO:0012505    endomembrane system    A collection of membranous structures involved in transport within the cell. The main components of the endomembrane system are endoplasmic reticulum, Golgi bodies, vesicles, cell membrane and nuclear envelope. Members of the endomembrane system pass materials through each other or though the use of vesicles.
    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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0043005    neuron projection    A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
    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.
    GO:0045202    synapse    The junction between a nerve fiber of one neuron and another neuron, muscle fiber or glial cell. As the nerve fiber approaches the synapse it enlarges into a specialized structure, the presynaptic nerve ending, which contains mitochondria and synaptic vesicles. At the tip of the nerve ending is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic nerve ending secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ITSN1_HUMAN | Q158111ki1 2kgr 3fia 3qbv 4iim 5hzi 5hzj 5hzk

(-) Related Entries Specified in the PDB File

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