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(-) Description

Title :  STRUCTURAL BASIS OF PXXDY MOTIF RECOGNITION IN SH3 BINDING
 
Authors :  O. Aitio, M. Hellman, T. Kesti, I. Kleino, O. Samuilova, H. Tossavainen, K. Saksela, P. Permi
Date :  02 Apr 08  (Deposition) - 17 Feb 09  (Release) - 17 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Alternative Splicing, Coiled Coil, Cytoplasm, Sh3 Domain, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Aitio, M. Hellman, T. Kesti, I. Kleino, O. Samuilova, K. Paakkonen, H. Tossavainen, K. Saksela, P. Permi
Structural Basis Of Pxxdy Motif Recognition In Sh3 Binding.
J. Mol. Biol. V. 382 167 2008
PubMed-ID: 18644376  |  Reference-DOI: 10.1016/J.JMB.2008.07.008
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - EPS8-LIKE PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Vector: PGEX6P
    Expression System Vector Type: PLASMID
    Fragment: SH3 DOMAIN (UNP RESIDUES 481-536)
    Gene: EPS8L1, DRC3, EPS8R1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Synonym: EPIDERMAL GROWTH FACTOR RECEPTOR KINASE SUBSTRATE 8-RELATED PROTEIN 1, EPS8-LIKE PROTEIN 1

 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 2K2M)

(-) Sites  (0, 0)

(no "Site" information available for 2K2M)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2K2M)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2K2M)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2K2M)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SH3PS50002 Src homology 3 (SH3) domain profile.ES8L1_HUMAN478-537  1A:479-536

(-) Exons   (0, 0)

(no "Exon" information available for 2K2M)

(-) 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:68
 aligned with ES8L1_HUMAN | Q8TE68 from UniProtKB/Swiss-Prot  Length:723

    Alignment length:188
                                   371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541        
          ES8L1_HUMAN   362 GPEFASSVRRPHLTSDAVALLRDNVTPRENELWTSLGDSWTRPGLELSPEEGPPYRPEFFSGWEPPVTDPQSRAWEDPVEKQLQHERRRRQQSAPQVAVNGHRDLEPESEPQLESETAGKWVLCNYDFQARNSSELSVKQRDVLEVLDDSRKWWKVRDPAGQEGYVPYNILTPYPGPRLHHSQSPARS 549
               SCOP domains d2                                 k2                       ma                                                       _ A: automated matches                                                  SCOP domains
               CATH domains 2k                                 2m                       A0                                                       0 A:473-540 SH3 Domains                                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------SH3_1-2k2mA01 A:486-529                     -------------------- Pfam domains
         Sec.struct. author ..---------------------------------..-----------------------..-------------------------------------------------------...eeee..................eeeeee....eeeee......eeee...eee..---------.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------SH3  PDB: A:479-536 UniProt: 478-537                        ------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2k2m A 473 GP---------------------------------LG-----------------------SG-------------------------------------------------------ALKWVLCNYDFQARNSSELSVKQRDVLEVLDDSRKWWKVRDPAGQEGYVPYNILTPYP---------AAAS 540
                             |       -         -         -     ||  -         -         -||       -         -         -         -         -       481       491       501       511       521       531    |    -    |   
                             |                               475|                     477|                                                     479                                                      536       537   
                           474                                476                      478
   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
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: SH3 (175)

(-) Gene Ontology  (13, 13)

NMR Structure(hide GO term definitions)
Chain A   (ES8L1_HUMAN | Q8TE68)
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: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: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:0032587    ruffle membrane    The portion of the plasma membrane surrounding a ruffle.

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 Related Entries

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        ES8L1_HUMAN | Q8TE68: 2rol

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