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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SH3 DOMAIN FROM A S. CEREVISIAE HYPOTHETICAL 40.4 KDA PROTEIN AT 1.39 A RESOLUTION
 
Authors :  P. Kursula, F. Lehmann, Y. H. Song, M. Wilmanns
Date :  04 Mar 03  (Deposition) - 06 Apr 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.39
Chains :  Asym./Biol. Unit :  A
Keywords :  Sh3 Domain, Sturctural Genomics, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Kursula, F. Lehmann, Y. H. Song, M. Wilmanns
Crystal Structure Of The Sh3 Domain From A S. Cerevisiae Hypothetical 40. 4 Kda Protein At 1. 39 A Resolution
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HYPOTHETICAL 40.4 KDA PROTEIN IN PES4-HIS2 INTERGENIC REGION
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector: PDEST-17
    Fragment: SH3 DOMAIN
    Gene: YFR024C
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1CL3Ligand/IonCHLORIDE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:22 , ARG A:46 , GLU A:47 , HOH A:129BINDING SITE FOR RESIDUE CL A 111
2AC2SOFTWAREALA A:11BINDING SITE FOR RESIDUE CL A 112
3AC3SOFTWAREGLN A:35BINDING SITE FOR RESIDUE CL A 113

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1OOT)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1OOT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OOT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1OOT)

(-) Exons   (1, 1)

Asymmetric/Biological Unit (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YFR024C-A1YFR024C-A.1VI:203421-20337547LSB3_YEAST1-16160--
1.2YFR024C-A2YFR024C-A.2VI:203280-2019481333LSB3_YEAST16-4594441A:1-5858

(-) 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:58
 aligned with LSB3_YEAST | P43603 from UniProtKB/Swiss-Prot  Length:459

    Alignment length:58
                                   411       421       431       441       451        
           LSB3_YEAST   402 SPKAVALYSFAGEESGDLPFRKGDVITILKKSDSQNDWWTGRVNGREGIFPANYVELV 459
               SCOP domains d1oota_ A: Hypothetical protein YFR024c                    SCOP domains
               CATH domains 1ootA00 A:1-58 SH3 Domains                                 CATH domains
               Pfam domains ----SH3_1-1ootA01 A:5-52                            ------ Pfam domains
         Sec.struct. author ..eeee..................eeeeee.......eeeeee..eeeeee...eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.2  PDB: A:1-58 UniProt: 16-459 [INCOMPLETE]         Transcript 1
                 1oot A   1 SPKAVALYSFAGEESGDLPFRKGDVITILKKSDSQNDWWTGRVNGREGIFPANYVELV  58
                                    10        20        30        40        50
   Legend:   → Mismatch (orange background)
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  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
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: SH3 (175)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (LSB3_YEAST | P43603)
molecular function
    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.
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
    GO:0035091    phosphatidylinositol binding    Interacting selectively and non-covalently with any inositol-containing glycerophospholipid, i.e. phosphatidylinositol (PtdIns) and its phosphorylated derivatives.
    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:0051666    actin cortical patch localization    Any process in which actin cortical patches are transported to, or maintained in, a specific location. An actin cortical patch is a discrete actin-containing structure found just beneath the plasma membrane in fungal cells.
    GO:0051017    actin filament bundle assembly    The assembly of actin filament bundles; actin filaments are on the same axis but may be oriented with the same or opposite polarities and may be packed with different levels of tightness.
    GO:1900027    regulation of ruffle assembly    Any process that modulates the frequency, rate or extent of ruffle assembly.
cellular component
    GO:0030479    actin cortical patch    An endocytic patch that consists of an actin-containing structure found at the plasma membrane in cells; formed of networks of branched actin filaments that lie just beneath the plasma membrane and assemble, move, and disassemble rapidly. An example of this is the actin cortical patch found in Saccharomyces cerevisiae.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0032587    ruffle membrane    The portion of the plasma membrane surrounding a ruffle.

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 Related Entries

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        LSB3_YEAST | P43603: 1ssh

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