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(-) Description

Title :  RNA-BINDING DOMAIN OF NON-STRUCTURAL PROTEIN 1 FROM INFLUENZA VIRUS, NMR, 16 STRUCTURES
 
Authors :  G. T. Montelione, C. -Y. Chien, R. Tejero
Date :  02 Oct 97  (Deposition) - 14 Jan 98  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (16x)
Keywords :  Nonstructural Protein, Rna-Binding, Ssrna-Binding, Dsrna- Binding, Polya-Rna-Binding, Dimeric Six Helical Structure (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Y. Chien, R. Tejero, Y. Huang, D. E. Zimmerman, C. B. Rios, R. M. Krug, G. T. Montelione
A Novel Rna-Binding Motif In Influenza A Virus Non-Structural Protein 1.
Nat. Struct. Biol. V. 4 891 1997
PubMed-ID: 9360601  |  Reference-DOI: 10.1038/NSB1197-891
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NONSTRUCTURAL PROTEIN 1
    Cell Line: BL21
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET11A-NS1A(1-73)CC
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Fragment: RNA-BINDING DOMAIN, RESIDUES 1 - 73
    Gene: J02169
    Organism Scientific: INFLUENZA A VIRUS
    Organism Taxid: 11320
    Strain: UDORN/307/72
    Synonym: NS1

 Structural Features

(-) Chains, Units

  
NMR Structure (16x): 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1NS1)

(-) Sites  (0, 0)

(no "Site" information available for 1NS1)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1NS1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1NS1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1NS1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1NS1)

(-) Exons   (0, 0)

(no "Exon" information available for 1NS1)

(-) 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:73
 aligned with NS1_I72A2 | P03495 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:73
                                    10        20        30        40        50        60        70   
             NS1_I72A2    1 MDSNTVSSFQVDCFLWHVRKQVVDQELGDAPFLDRLRRDQKSLRGRGSTLGLNIEAATHVGKQIVEKILKEES 73
               SCOP domains d1ns1a_ A: N-terminal, RNA-binding domain of nonstructural protein NS1    SCOP domains
               CATH domains 1ns1A00 A:1-73  [code=1.10.287.10, no name defined]                       CATH domains
               Pfam domains ------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------- Transcript
                  1ns1 A  1 MDSNTVSSFQVDCFLWHVRKQVVDQELGDAPFLDRLRRDQKSLRGRGSTLGLNIEAATHVGKQIVEKILKEES 73
                                    10        20        30        40        50        60        70   


Chain B from PDB  Type:PROTEIN  Length:73
 aligned with NS1_I72A2 | P03495 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:73
                                    10        20        30        40        50        60        70   
             NS1_I72A2    1 MDSNTVSSFQVDCFLWHVRKQVVDQELGDAPFLDRLRRDQKSLRGRGSTLGLNIEAATHVGKQIVEKILKEES 73
               SCOP domains d1ns1b_ B: N-terminal, RNA-binding domain of nonstructural protein NS1    SCOP domains
               CATH domains 1ns1B00 B:1-73  [code=1.10.287.10, no name defined]                       CATH domains
           Pfam domains (1) Flu_NS1-1ns1B01 B:1-73                                                    Pfam domains (1)
           Pfam domains (2) Flu_NS1-1ns1B02 B:1-73                                                    Pfam domains (2)
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------- Transcript
                  1ns1 B  1 MDSNTVSSFQVDCFLWHVRKQVVDQELGDAPFLDRLRRDQKSLRGRGSTLGLNIEAATHVGKQIVEKILKEES 73
                                    10        20        30        40        50        60        70
   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, 2)

NMR Structure
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

NMR Structure
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 2)

NMR Structure
(-)
Clan: no clan defined [family: Flu_NS1] (13)

(-) Gene Ontology  (17, 17)

NMR Structure(hide GO term definitions)
Chain A,B   (NS1_I72A2 | P03495)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0003725    double-stranded RNA binding    Interacting selectively and non-covalently with double-stranded RNA.
    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:0030683    evasion or tolerance by virus of host immune response    Any process, either active or passive, by which a virus avoids the effects of the host organism's immune response. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0052038    modulation by symbiont of host intracellular transport    Any process in which an organism modulates the frequency, rate or extent of the directed movement of substances within the cell or cells of the host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0019056    modulation by virus of host transcription    Any process in which a virus modulates the frequency, rate or extent of its host's transcription.
    GO:0052170    negative regulation by symbiont of host innate immune response    Any process in which an organism stops, prevents, or reduces the frequency, rate or extent of the innate immune response of the host organism, the host's first line of defense against infection. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0039580    suppression by virus of host PKR activity    Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of host PKR (protein kinase regulated by RNA) activity. Activation of PKR involves dsRNA binding followed by autophosphorylation. Phosphorylated PKR can then phosphorylate downstream targets such as the translation initiation factor eIF2 to inhibit protein synthesis. Viruses encode a number of mechanisms to inhibit the host antiviral response via PKR, including direct interaction with PKR, promoting degradation of PKR or altering the subcellular location of PKR.
    GO:0039540    suppression by virus of host RIG-I activity    Any process in which a virus stops, prevents, or reduces the activity of RIG-1 (also known as DDX58). The cytoplasmic pattern recognition RIG-I recognizes viral RNA synthesized during active viral replication and signals to protect the host against viral infection, for example by inducing the expression of antiviral cytokines.
    GO:0046775    suppression by virus of host cytokine production    Any viral process that results in the inhibition of host cell cytokine production.
    GO:0039657    suppression by virus of host gene expression    Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of gene expression in the host organism. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.
    GO:0039503    suppression by virus of host innate immune response    Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of the innate immune response of the host organism, the host's first line of defense.
    GO:0039524    suppression by virus of host mRNA processing    Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of mRNA processing in the host cell. mRNA processing is the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide.
    GO:0039502    suppression by virus of host type I interferon-mediated signaling pathway    Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of type I interferon-mediated signaling in the host organism. Type I interferons include the interferon-alpha, beta, delta, episilon, zeta, kappa, tau, and omega gene families.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
cellular component
    GO:0030430    host cell cytoplasm    The cytoplasm of a host cell.
    GO:0042025    host cell nucleus    A membrane-bounded organelle as it is found in the host cell in which chromosomes are housed and replicated. The host is defined as the larger of the organisms involved in a symbiotic interaction.

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 Related Entries

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

UniProtKB/Swiss-Prot
        NS1_I72A2 | P03495: 1ail 2kkz 2rhk 3ee8 3ee9 3kwg 3kwi 4nw2 4o45

(-) Related Entries Specified in the PDB File

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