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    POLY polyprotein;truncated polyprotein NS1 prime [ West Nile virus ]

    Gene ID: 912267, updated on 18-Aug-2023

    Summary

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    Gene symbol
    POLY
    Gene description
    polyprotein;truncated polyprotein NS1 prime
    Locus tag
    WNVgp1
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    West Nile virus (strain: 956)
    Lineage
    Viruses; Riboviria; Flaviviridae; Flavivirus
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    Genomic context

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    Location:
    clone: 33/G8; 34/F6
    Sequence:
    NC_001563.2 (97..10389)

    NC_001563.2Genomic Context describing neighboring genes

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001563.2

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The two-component NS2B-NS3 proteinase represses DNA unwinding activity of the West Nile virus NS3 helicase. Chernov AV, et al. J Biol Chem, 2008 Jun 20. PMID 18442976, Free PMC Article
    2. Sequence analysis of the viral core protein and the membrane-associated proteins V1 and NV2 of the flavivirus West Nile virus and of the genome sequence for these proteins. Castle E, et al. Virology, 1985 Sep. PMID 2992152
    3. Primary structure of the West Nile flavivirus genome region coding for all nonstructural proteins. Castle E, et al. Virology, 1986 Feb. PMID 3753811
    4. Sequence analysis of the membrane protein V3 of the flavivirus West Nile virus and of its gene. Wengler G, et al. Virology, 1985 Dec. PMID 3855247
    5. An infectious clone of the West Nile flavivirus. Yamshchikov VF, et al. Virology, 2001 Mar 15. PMID 11277701

    See all (44) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Amino acid 159 of the envelope protein affects viral replication and T-cell infiltration by West Nile virus in intracranial infection.
      Title: Amino acid 159 of the envelope protein affects viral replication and T-cell infiltration by West Nile virus in intracranial infection.
    2. This study thus shows for the first time that nuclear localization sequence-dependent trafficking into the nucleus during infection of Kunjin virus NS5 is critical for viral replication.
      Title: Nucleocytoplasmic shuttling of the West Nile virus RNA-dependent RNA polymerase NS5 is critical to infection.
    3. This study portrayed the non-structural function of C protein that helped the flavivirus to nullify the antiviral activity of hSec3p by accelerating its degradation and facilitating efficient binding of elongation factor 1alpha with flaviviral RNA genome.
      Title: West Nile virus and dengue virus capsid protein negates the antiviral activity of human Sec3 protein through the proteasome pathway.
    4. evidence of the intrinsic flexibility and conformational heterogeneity of the NS2B chain of the WNV protease in the absence of substratelike ligands, which should be considered during antiviral drug discovery and development efforts
      Title: Intrinsic flexibility of West Nile virus protease in solution characterized using small-angle X-ray scattering.
    5. Mass spectrometry and coimmunoprecipitation studies established a novel physical interaction between NS1 and NS4B, suggesting a mechanism for how luminal NS1 conveys signals to the cytoplasm to regulate RNA replication.
      Title: Evidence for a genetic and physical interaction between nonstructural proteins NS1 and NS4B that modulates replication of West Nile virus.
    6. NS4B P38G substitution was associated with both temperature-sensitive and small-plaque phenotypes.
      Title: Mutational analysis of the West Nile virus NS4B protein.
    7. KAWGKSILFA is a novel epitope of NS1 protein recognized by the NS1 mAb.
      Title: A cross-protective mAb recognizes a novel epitope within the flavivirus NS1 protein.
    8. West Nile virus specific B-cell epitopes located at aa 21-36, 101-116, 191-206 and 261-276 of NS1.
      Title: Comprehensive mapping of West Nile virus (WNV)- and Japanese encephalitis virus serocomplex-specific linear B-cell epitopes from WNV non-structural protein 1.
    9. Structural protein, prME, dictates the growth differences of St Louis encephalitis virus and West Nile virus.
      Title: Structural gene (prME) chimeras of St Louis encephalitis virus and West Nile virus exhibit altered in vitro cytopathic and growth phenotypes.
    10. The combined effects of proline and negatively charged residues within the PEPE peptide are essential to promote the cleavage of 2K from NS4A, which is a prerequisite for efficient West Nile virus replication.
      Title: A conserved peptide in West Nile virus NS4A protein contributes to proteolytic processing and is essential for replication.
    Submit: New GeneRIF Correction See all GeneRIFs (38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General protein information

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    Preferred Names
    polyprotein;truncated polyprotein NS1 prime
    Names
    capsid protein C
    anchored capsid protein ancC
    membrane glycoprotein precursor prM
    membrane glycoprotein M
    envelope protein E
    nonstructural protein NS1
    nonstructural protein NS2A
    nonstructural protein NS2B
    nonstructural protein NS3
    nonstructural protein NS4A
    protein 2K
    nonstructural protein NS4B
    RNA-dependent RNA polymerase NS5
    protein pr
    nonstructural protein NS1 prime
    YP_009164950.1
    • NS1' protein; transframe fusion protein expressed via programmed ribosomal frameshifting; when frameshifting occurs, cleavage between NS1 and NS2A fails to occur

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_001563.2 Reference assembly

      Range
      97..10389
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_041724.2 polyprotein [West Nile virus]

      See identical proteins and their annotated locations for NP_041724.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P06935
      UniProtKB/TrEMBL
      Q5MXE3
      Conserved Domains (20) summary
      pfam01003
      Location:6 → 105
      Flavi_capsid; Flavivirus capsid protein C
      pfam01003
      Location:6 → 123
      Flavi_capsid; Flavivirus capsid protein C
      pfam01004
      Location:98 → 167
      Flavi_M; Flavivirus envelope glycoprotein M
      pfam01570
      Location:7 → 81
      Flavi_propep; Flavivirus polyprotein propeptide
      pfam01004
      Location:6 → 75
      Flavi_M; Flavivirus envelope glycoprotein M
      cd12149
      Location:304 → 396
      Flavi_E_C; Immunoglobulin-like domain III (C-terminal domain) of Flavivirus envelope glycoprotein E
      TIGR04240
      Location:401 → 497
      flavi_E_stem; flavivirus envelope glycoprotein E, stem/anchor domain
      pfam00869
      Location:3 → 295
      Flavi_glycoprot; Flavivirus glycoprotein, central and dimerization domains
      pfam00948
      Location:2 → 352
      Flavi_NS1; Flavivirus non-structural Protein NS1
      pfam01005
      Location:12 → 164
      Flavi_NS2A; Flavivirus non-structural protein NS2A
      pfam01002
      Location:6 → 131
      Flavi_NS2B; Flavivirus non-structural protein NS2B
      smart00487
      Location:181 → 326
      DEXDc; DEAD-like helicases superfamily
      pfam00949
      Location:19 → 167
      Peptidase_S7; Peptidase S7, Flavivirus NS3 serine protease
      pfam07652
      Location:186 → 331
      Flavi_DEAD; Flavivirus DEAD domain
      cl21455
      Location:357 → 465
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
      pfam01350
      Location:5 → 126
      Flavi_NS4A; Flavivirus non-structural protein NS4A
      pfam01349
      Location:1 → 247
      Flavi_NS4B; Flavivirus non-structural protein NS4B
      pfam00972
      Location:254 → 894
      Flavi_NS5; Flavivirus RNA-directed RNA polymerase
      pfam01728
      Location:55 → 223
      FtsJ; FtsJ-like methyltransferase
      pfam01570
      Location:7 → 91
      Flavi_propep; Flavivirus polyprotein propeptide

    2. YP_009164950.1 truncated flavivirus polyprotein NS1 prime [West Nile virus]

      Status: PROVISIONAL

      Conserved Domains (7) summary
      cd12149
      Location:594 → 686
      Flavi_E_C; Immunoglobulin-like domain III (C-terminal domain) of Flavivirus envelope glycoprotein E
      TIGR04240
      Location:691 → 787
      flavi_E_stem; flavivirus envelope glycoprotein E, stem/anchor domain
      pfam01003
      Location:6 → 123
      Flavi_capsid; Flavivirus capsid protein C
      pfam00869
      Location:293 → 585
      Flavi_glycoprot; Flavivirus glycoprotein, central and dimerization domains
      pfam00948
      Location:789 → 1139
      Flavi_NS1; Flavivirus non-structural Protein NS1
      pfam01004
      Location:221 → 290
      Flavi_M; Flavivirus envelope glycoprotein M
      pfam01570
      Location:130 → 204
      Flavi_propep; Flavivirus polyprotein propeptide

    3. YP_009164952.1 nonstructural protein NS1 prime

      Conserved Domains (1) summary
      pfam00948
      Location:2 → 352
      Flavi_NS1; Flavivirus non-structural Protein NS1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P06935.2

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