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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN HOMER3 EVH1 DOMAIN
 
Authors :  S. Bouyain, J. Tu, G. N. Huang, P. F. Worley, D. Leahy
Date :  23 Mar 07  (Deposition) - 20 Nov 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A
Keywords :  Homer3, Evh1 Domain, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  G. N. Huang, D. L. Huso, S. Bouyain, J. Tu, K. A. Mccorkell, M. J. May, Y. Zhu, M. Lutz, S. Collins, M. Dehoff, S. Kang, K. Whartenby, J. Powell, D. Leahy, P. F. Worley
Nfat Binding And Regulation Of T Cell Activation By The Cytoplasmic Scaffolding Homer Proteins.
Science V. 319 476 2008
PubMed-ID: 18218901  |  Reference-DOI: 10.1126/SCIENCE.1151227
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HOMER PROTEIN HOMOLOG 3
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPT7HMT
    Expression System StrainB834(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneHOMER3
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymHOMER-3

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:68 , PRO A:69 , ASN A:70 , THR A:72 , ARG A:87 , ARG A:120BINDING SITE FOR RESIDUE SO4 A 122

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2P8V)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2P8V)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2P8V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2P8V)

(-) Exons   (4, 4)

Asymmetric/Biological Unit (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003923511ENSE00001511552chr19:19051983-19051860124HOME3_HUMAN-00--
1.2aENST000003923512aENSE00001511549chr19:19049858-1904977881HOME3_HUMAN1-551A:5-84
1.3ENST000003923513ENSE00001182908chr19:19049693-19049537157HOME3_HUMAN5-57531A:8-6053
1.4ENST000003923514ENSE00001223641chr19:19049293-19049162132HOME3_HUMAN58-101441A:61-10444
1.5bENST000003923515bENSE00001122610chr19:19045219-19045112108HOME3_HUMAN102-137361A:105-12117
1.6ENST000003923516ENSE00000690660chr19:19043854-19043733122HOME3_HUMAN138-178410--
1.7ENST000003923517ENSE00000690658chr19:19042941-19042785157HOME3_HUMAN178-230530--
1.8ENST000003923518ENSE00000365684chr19:19042434-19042318117HOME3_HUMAN231-269390--
1.9ENST000003923519ENSE00000365685chr19:19042220-1904213487HOME3_HUMAN270-298290--
1.10aENST0000039235110aENSE00001113523chr19:19040443-19040012432HOME3_HUMAN299-361630--

(-) Sequences/Alignments

Asymmetric/Biological Unit
   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:117
 aligned with HOME3_HUMAN | Q9NSC5 from UniProtKB/Swiss-Prot  Length:361

    Alignment length:117
                                    11        21        31        41        51        61        71        81        91       101       111       
          HOME3_HUMAN     2 STAREQPIFSTRAHVFQIDPATKRNWIPAGKHALTVSYFYDATRNVYRIISIGGAKAIINSTVTPNMTFTKTSQKFGQWADSRANTVYGLGFASEQHLTQFAEKFQEVKEAARLARE 118
               SCOP domains d2p8va_ A: automated matches                                                                                          SCOP domains
               CATH domains 2p8vA00 A:5-121 Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)                           CATH domains
               Pfam domains WH1-2p8vA01 A:5-113                                                                                          -------- Pfam domains
         Sec.struct. author ....eeeeeeeeeeeeee.......eee.....eeeeeeee....eeeeeeee..eeeeeee......eee....eeeeee....eeeeee..hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.2a----------------------------------------------------Exon 1.4  PDB: A:61-104 UniProt: 58-101     Exon 1.5b         Transcript 1 (1)
           Transcript 1 (2) ---Exon 1.3  PDB: A:8-60 UniProt: 5-57                  ------------------------------------------------------------- Transcript 1 (2)
                 2p8v A   5 STAREQPIFSTRAHVFQIDPATKRNWIPAGKHALTVSYFYDATRNVYRIISIGGAKAIINSTVTPNMTFTKTSQKFGQWADSRANTVYGLGFASEQHLTQFAEKFQEVKEAARLARE 121
                                    14        24        34        44        54        64        74        84        94       104       114       

   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)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: PH (111)

(-) Gene Ontology  (16, 16)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (HOME3_HUMAN | Q9NSC5)
molecular function
    GO:0035256    G-protein coupled glutamate receptor binding    Interacting selectively and non-covalently with a G-protein coupled glutamate receptor (a metabotropic glutamate receptor).
    GO:0008022    protein C-terminus binding    Interacting selectively and non-covalently with a protein C-terminus, the end of any peptide chain at which the 1-carboxy function of a constituent amino acid is not attached in peptide linkage to another amino-acid residue.
    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:0019904    protein domain specific binding    Interacting selectively and non-covalently with a specific domain of a protein.
biological process
    GO:0007216    G-protein coupled glutamate receptor signaling pathway    A series of molecular signals initiated by glutamate binding to a glutamate receptor on the surface of the target cell, and proceeding with the activated receptor promoting the exchange of GDP for GTP on the alpha-subunit of an associated heterotrimeric G-protein complex. Ends with regulation of a downstream cellular process, e.g. transcription.
    GO:0006605    protein targeting    The process of targeting specific proteins to particular regions of the cell, typically membrane-bounded subcellular organelles. Usually requires an organelle specific protein sequence motif.
cellular component
    GO:0045178    basal part of cell    The region of a cell situated near the base. For example, in a polarized epithelial cell, the basal surface rests on the basal lamina that separates the epithelium from other tissue.
    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:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.
    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: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:0014069    postsynaptic density of dendrite    An electron dense network of proteins within and adjacent to the postsynaptic membrane of the dendrite of asymetric synapses. Its major components include neurotransmitter receptors and the proteins that spatially and functionally organize them such as anchoring and scaffolding molecules, signaling enzymes and cytoskeletal components.
    GO:0045211    postsynaptic membrane    A specialized area of membrane facing the presynaptic membrane on the tip of the nerve ending and separated from it by a minute cleft (the synaptic cleft). Neurotransmitters cross the synaptic cleft and transmit the signal to the postsynaptic membrane.
    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
        HOME3_HUMAN | Q9NSC53cvf

(-) Related Entries Specified in the PDB File

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