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(-) Description

Title :  SOLUTION STRUCTURE OF THE ZZ DOMAIN OF DYSTROBREVIN ALPHA (DYSTROBREVIN-ALPHA)
 
Authors :  W. Dang, Y. Muto, M. Inoue, T. Kigawa, M. Shirouzu, T. Terada, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  22 Dec 06  (Deposition) - 26 Jun 07  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Nmr, Zz Domain, Dystrobrevin Alpha, Dystrobrevin-Alpha, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  W. Dang, Y. Muto, M. Inoue, T. Kigawa, M. Shirouzu, T. Terada, S. Yokoyama
Solution Structure Of The Zz Domain Of Dystrobrevin Alpha (Dystrobrevin-Alpha)
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DYSTROBREVIN ALPHA
    ChainsA
    EngineeredYES
    Expression System PlasmidP060327-04
    Expression System Vector TypePLASMID
    FragmentZZ DOMAIN
    GeneDTNA
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsCELL FREE PROTEIN SYNTHESIS
    SynonymDYSTROBREVIN-ALPHA, DYSTROPHIN-RELATED PROTEIN 3

 Structural Features

(-) Chains, Units

  
NMR Structure (20x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

NMR Structure (1, 2)
No.NameCountTypeFull Name
1ZN2Ligand/IonZINC ION

(-) Sites  (2, 2)

NMR Structure (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:14 , CYS A:17 , CYS A:38 , CYS A:41BINDING SITE FOR RESIDUE ZN A 201
2AC2SOFTWARECYS A:29 , GLN A:31 , CYS A:32 , HIS A:51 , HIS A:55BINDING SITE FOR RESIDUE ZN A 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2E5R)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2E5R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2E5R)

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZF_ZZ_2PS50135 Zinc finger ZZ-type profile.DTNA_HUMAN237-284  1A:8-55
2ZF_ZZ_1PS01357 Zinc finger ZZ-type signature.DTNA_HUMAN243-270  1A:14-41

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.5bENST000003991135bENSE00001536474chr18:32335941-3233600767DTNA_HUMAN1-23230--
1.6ENST000003991136ENSE00001801666chr18:32345925-3234600581DTNA_HUMAN23-50280--
1.7ENST000003991137ENSE00001751131chr18:32374001-32374214214DTNA_HUMAN50-121720--
1.8ENST000003991138ENSE00001594417chr18:32386183-3238626886DTNA_HUMAN121-150301A:1-22
1.9ENST000003991139ENSE00001735364chr18:32391923-32392077155DTNA_HUMAN150-201521A:3-75
1.10ENST0000039911310ENSE00001760392chr18:32395873-32395978106DTNA_HUMAN202-237361A:8-81
1.11ENST0000039911311ENSE00001794619chr18:32398128-32398294167DTNA_HUMAN237-292561A:8-6356
1.13ENST0000039911313ENSE00001725243chr18:32400755-32400879125DTNA_HUMAN293-334420--
1.16ENST0000039911316ENSE00001712321chr18:32405231-324052399DTNA_HUMAN334-33740--
1.17ENST0000039911317ENSE00001108288chr18:32407557-3240764084DTNA_HUMAN337-365290--
1.20ENST0000039911320ENSE00000948485chr18:32418058-3241813578DTNA_HUMAN365-391270--
1.21ENST0000039911321ENSE00000948486chr18:32418709-3241880193DTNA_HUMAN391-422320--
1.22ENST0000039911322ENSE00000948487chr18:32428260-3242834788DTNA_HUMAN422-451300--
1.23ENST0000039911323ENSE00000948488chr18:32431795-3243189298DTNA_HUMAN452-484330--
1.24ENST0000039911324ENSE00001633003chr18:32438249-32438362114DTNA_HUMAN484-522390--
1.25ENST0000039911325ENSE00000948490chr18:32443930-3244402697DTNA_HUMAN522-554330--
1.27ENST0000039911327ENSE00000916094chr18:32455203-32455362160DTNA_HUMAN555-608540--
1.28ENST0000039911328ENSE00000916095chr18:32457683-3245777290DTNA_HUMAN608-638310--
1.29ENST0000039911329ENSE00000916096chr18:32459515-32459683169DTNA_HUMAN638-694570--
1.30ENST0000039911330ENSE00000916097chr18:32462033-32462165133DTNA_HUMAN694-738450--
1.31aENST0000039911331aENSE00001727787chr18:32464692-3246470918DTNA_HUMAN739-74350--

(-) 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:63
 aligned with DTNA_HUMAN | Q9Y4J8 from UniProtKB/Swiss-Prot  Length:743

    Alignment length:152
                                   150       160       170       180       190       200       210       220       230       240       250       260       270       280       290  
           DTNA_HUMAN   141 GGKIMDKLRYIFSMISDSSGVMVYGRYDQFLREVLKLPTAVFEGPSFGYTEQSARSCFSQQKKVTLNGFLDTLMSDPPPQCLVWLPLLHRLANVENVFHPVECSYCHSESMMGFRYRCQQCHNYQLCQDCFWRGHAGGSHSNQHQMKEYTSW 292
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..-------------.....----------------------------------------------------------------------------..................eeee......ee.hhhhhh............eeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ------------------------------------------------------------------------------------------------ZF_ZZ_2  PDB: A:8-55 UniProt: 237-284           -------- PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------ZF_ZZ_1  PDB: A:14-41       ---------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.8  ---------------------------------------------------Exon 1.10  PDB: A:8-8 [INCOMPLETE]  ------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ---------Exon 1.9  PDB: A:3-7 UniProt: 150-201 [INCOMPLETE]  -----------------------------------Exon 1.11  PDB: A:8-63 UniProt: 237-292                  Transcript 1 (2)
                 2e5r A   1 GS-------------SGSSG----------------------------------------------------------------------------VFHPVECSYCHSESMMGFRYRCQQCHNYQLCQDCFWRGHAGGSHSNQHQMKEYTSW  63
                             |       -     |   7         -         -         -         -         -         -         -      | 11        21        31        41        51        61  
                             2             3   7                                                                            8                                                       

   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 2E5R)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2E5R)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2E5R)

(-) Gene Ontology  (18, 18)

NMR Structure(hide GO term definitions)
Chain A   (DTNA_HUMAN | Q9Y4J8)
molecular function
    GO:0030165    PDZ domain binding    Interacting selectively and non-covalently with a PDZ domain of a protein, a domain found in diverse signaling proteins.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0007268    chemical synaptic transmission    The vesicular release of classical neurotransmitter molecules from a presynapse, across a chemical synapse, the subsequent activation of neurotransmitter receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse.
    GO:0007274    neuromuscular synaptic transmission    The process of synaptic transmission from a neuron to a muscle, across a synapse.
    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.
    GO:0006941    striated muscle contraction    A process in which force is generated within striated muscle tissue, resulting in the shortening of the muscle. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. Striated muscle is a type of muscle in which the repeating units (sarcomeres) of the contractile myofibrils are arranged in registry throughout the cell, resulting in transverse or oblique striations observable at the level of the light microscope.
cellular component
    GO:0030424    axon    The long process of a neuron that conducts nerve impulses, usually away from the cell body to the terminals and varicosities, which are sites of storage and release of neurotransmitter.
    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:0031234    extrinsic component of cytoplasmic side of plasma membrane    The component of a plasma membrane consisting of gene products and protein complexes that are loosely bound to its cytoplasmic surface, but not integrated into the hydrophobic region.
    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.
    GO:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.
    GO:0042383    sarcolemma    The outer membrane of a muscle cell, consisting of the plasma membrane, a covering basement membrane (about 100 nm thick and sometimes common to more than one fiber), and the associated loose network of collagen fibers.
    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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