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(-) Description

Title :  CRYSTAL STRUCTURE OF PHOSPHOTYROSINE BINDING (PTB) DOMAIN OF EPIDERMAL GROWTH FACTOR RECEPTOR PATHWAY SUBSTRATE-8 (EPS8) RELATED PROTEIN 1 FROM MUS MUSCULUS (FORM-1 CRYSTAL)
 
Authors :  E. Mizohata, H. Hamana, S. Morita, Y. Kinoshita, K. Nagano, H. Uda, T. Terada, M. Shirouzu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  04 Jul 05  (Deposition) - 04 Jan 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.94
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Structural Genomics, Signal Transduction, Phosphorylation, Ptb Domain, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. Mizohata, H. Hamana, S. Morita, Y. Kinoshita, K. Nagano, H. Uda, T. Terada, M. Shirouzu, S. Yokoyama
Crystal Structure Of Phosphotyrosine Binding (Ptb) Domain Of Epidermal Growth Factor Receptor Pathway Substrate-8 (Eps8) Related Protein 1 From Mus Musculus (Form-1 Crystal)
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - EPIDERMAL GROWTH FACTOR RECEPTOR PATHWAY SUBSTRATE 8-LIKE PROTEIN 1
    ChainsA
    EngineeredYES
    Expression System PlasmidPK030114-32
    Expression System Vector TypePLASMID
    FragmentPHOSPHOTYROSINE BINDING (PTB) DOMAIN
    Organism CommonHOUSE MOUSE
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
    Other DetailsCELL FREE SYNTHESIS USING S30 EXTRACT FROM E. COLI
    SynonymEPS8 RELATED PROTEIN 1

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (2x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2MSE6Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:32 , ASP A:150 , HOH A:501 , HOH A:502 , HOH A:503 , HOH A:561 , HOH A:572BINDING SITE FOR RESIDUE CA A 500

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2CY4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2CY4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2CY4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2CY4)

(-) Exons   (0, 0)

(no "Exon" information available for 2CY4)

(-) Sequences/Alignments

Asymmetric 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    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:129
 aligned with ES8L1_MOUSE | Q8R5F8 from UniProtKB/Swiss-Prot  Length:716

    Alignment length:129
                                    40        50        60        70        80        90       100       110       120       130       140       150         
          ES8L1_MOUSE    31 ADVSQYHVNHLVTFCLGEEDGVHTVEDASRKLAVMDSQGRVWAQEMLLRVSPSQVTLLDPVSKEELESYPLDAIVRCDAVMPRGRSRSLLLLVCQEPERAQPDVHFFQGLLLGAELIREDIQGALQNYR 159
               SCOP domains d2cy4a1 A:31-159 EPS8-like protein 1, EPS8L1                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeeee........hhhhhhhhhhhhhhh.....eeeeeee...eeeee......eeeeee...eeeeeee........eeeeee........eeeeee....hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cy4 A  31 ADVSQYHVNHLVTFCLGEEDGVHTVEDASRKLAVmDSQGRVWAQEmLLRVSPSQVTLLDPVSKEELESYPLDAIVRCDAVmPRGRSRSLLLLVCQEPERAQPDVHFFQGLLLGAELIREDIQGALQNYR 159
                                    40        50        60    |   70     |  80        90       100       110|      120       130       140       150         
                                                             65-MSE     76-MSE                            111-MSE                                            

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  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 Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2CY4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2CY4)

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)
Chain A   (ES8L1_MOUSE | Q8R5F8)
molecular function
    GO:0030676    Rac guanyl-nucleotide exchange factor activity    Stimulates the exchange of guanyl nucleotides associated with a GTPase of the Rac 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: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:0042608    T cell receptor binding    Interacting selectively and non-covalently with a T cell receptor, the antigen-recognizing receptor on the surface of T cells.
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
    GO:0051015    actin filament binding    Interacting selectively and non-covalently with an actin filament, also known as F-actin, a helical filamentous polymer of globular G-actin subunits.
biological process
    GO:0016601    Rac protein signal transduction    A series of molecular signals within the cell that are mediated by a member of the Rac family of proteins switching to a GTP-bound active state.
    GO:0007266    Rho protein signal transduction    A series of molecular signals within the cell that are mediated by a member of the Rho family of proteins switching to a GTP-bound active state.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:1900029    positive regulation of ruffle assembly    Any process that activates or increases the frequency, rate or extent of ruffle assembly.
    GO:0035023    regulation of Rho protein signal transduction    Any process that modulates the frequency, rate or extent of Rho protein signal transduction.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    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: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:0001726    ruffle    Projection at the leading edge of a crawling cell; the protrusions are supported by a microfilament meshwork.
    GO:0032587    ruffle membrane    The portion of the plasma membrane surrounding a ruffle.

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 Related Entries

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        ES8L1_MOUSE | Q8R5F82cy5

(-) Related Entries Specified in the PDB File

2cy5 RELATED ID: MMT007011014.2 RELATED DB: TARGETDB