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(-) Description

Title :  SOLUTION STRUCTURE OF RIBOSOME ASSOCIATED FACTOR Y
 
Authors :  K. Ye, A. Serganov, W. Hu, D. J. Patel
Date :  05 Mar 02  (Deposition) - 04 Dec 02  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Ribosome Binding Protein, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  K. Ye, A. Serganov, W. Hu, M. Garber, D. J. Patel
Ribosome-Associated Factor Y Adopts A Fold Resembling A Double-Stranded Rna Binding Domain Scaffold.
Eur. J. Biochem. V. 269 5182 2002
PubMed-ID: 12392550  |  Reference-DOI: 10.1046/J.1432-1033.2002.03222.X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN YFIA
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET29B
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GeneYFIA
    Organism ScientificESCHERICHIA COLI
    Organism Taxid562
    SynonymRIBOSOME ASSOCIATED FACTOR Y

 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 1L4S)

(-) Sites  (0, 0)

(no "Site" information available for 1L4S)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1L4S)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1L4S)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1L4S)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1L4S)

(-) Exons   (0, 0)

(no "Exon" information available for 1L4S)

(-) 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:112
 aligned with YFIA_ECOLI | P0AD49 from UniProtKB/Swiss-Prot  Length:113

    Alignment length:112
                                    11        21        31        41        51        61        71        81        91       101       111  
           YFIA_ECOLI     2 TMNITSKQMEITPAIRQHVADRLAKLEKWQTHLINPHIILSKEPQGFVADATINTPNGVLVASGKHEDMYTAINELINKLERQLNKLQHKGEARRAATSVKDANFVEEVEEE 113
               SCOP domains d1l4sa_ A: Ribosome binding protein Y (YfiA homologue)                                                           SCOP domains
               CATH domains 1l4sA01 A:1-91  [code=3.30.160.100, no name defined]                                       --------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....hhhhhhhhhhhhhhh..........eeeeeee..eeeeeeeeee..eeeeeee...hhhhhhhhhhhhhhhhhhhhhh....................... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 1l4s A   1 TMNITSKQMEITPAIRQHVADRLAKLEKWQTHLINPHIILSKEPQGFVADATINTPNGVLVASGKHEDMYTAINELINKLERQLNKLQHKGEARRAATSVKDANFVEEVEEE 112
                                    10        20        30        40        50        60        70        80        90       100       110  

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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)

NMR Structure

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1L4S)

(-) Gene Ontology  (9, 9)

NMR Structure(hide GO term definitions)
Chain A   (YFIA_ECOLI | P0AD49)
molecular function
    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:0043024    ribosomal small subunit binding    Interacting selectively and non-covalently with any part of the small ribosomal subunit.
biological process
    GO:0045900    negative regulation of translational elongation    Any process that stops, prevents, or reduces the frequency, rate or extent of translational elongation.
    GO:0045947    negative regulation of translational initiation    Any process that stops, prevents, or reduces the frequency, rate or extent of translational initiation.
    GO:0044238    primary metabolic process    The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism.
    GO:0006417    regulation of translation    Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.
    GO:0009409    response to cold    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cold stimulus, a temperature stimulus below the optimal temperature for that organism.
cellular component
    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:0022627    cytosolic small ribosomal subunit    The small subunit of a ribosome located in the cytosol.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        YFIA_ECOLI | P0AD491n3g 4v4g 4v8i 4y4o 5fdu 5fdv

(-) Related Entries Specified in the PDB File

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