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    POLY polyprotein;protein F [ Hepatitis C virus genotype 1 ]

    Gene ID: 951475, updated on 18-Aug-2023

    Summary

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    Gene symbol
    POLY
    Gene description
    polyprotein;protein F
    Locus tag
    HCVgp1
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Hepatitis C virus genotype 1 (serotype: 1a, isolate: H77)
    Lineage
    Viruses; Riboviria; Flaviviridae; Hepacivirus
    NEW
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    Genomic context

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    Sequence:
    NC_004102.1 (342..9377)

    NC_004102.1Genomic Context describing neighboring genes

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_004102.1

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Genetic Determinants in a Critical Domain of NS5A Correlate with Hepatocellular Carcinoma in Cirrhotic Patients Infected with HCV Genotype 1b. Alkhatib M, et al. Viruses, 2021 Apr 23. PMID 33922732, Free PMC Article
    2. Analysis of drug-resistance-associated mutations and genetic barriers in hepatitis C virus NS5B sequences in China. Nie B, et al. Arch Virol, 2020 Sep. PMID 32601956
    3. Genotypic Regulation of Type I Interferon Induction Pathways by Frameshift (F) Proteins of Hepatitis C Virus. Lai YT, et al. J Virol, 2020 Jul 16. PMID 32434887, Free PMC Article
    4. Flexibility and intrinsic disorder are conserved features of hepatitis C virus E2 glycoprotein. Stejskal L, et al. PLoS Comput Biol, 2020 Feb. PMID 32109245, Free PMC Article
    5. Domain I of hepatitis C virus NS5A associates with ACBD3 in a genotype-dependent manner. Lu Y, et al. Microbiol Immunol, 2020 Aug. PMID 32108375

    See all (656) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The Hepatitis C virus NS5A and core proteins exert antagonistic effects on HAMP gene expression: the hidden interplay with the MTF-1/MRE pathway.
      Title: The Hepatitis C virus NS5A and core proteins exert antagonistic effects on HAMP gene expression: the hidden interplay with the MTF-1/MRE pathway.
    2. Genetic Determinants in a Critical Domain of NS5A Correlate with Hepatocellular Carcinoma in Cirrhotic Patients Infected with HCV Genotype 1b.
      Title: Genetic Determinants in a Critical Domain of NS5A Correlate with Hepatocellular Carcinoma in Cirrhotic Patients Infected with HCV Genotype 1b.
    3. Adenosylhomocysteinase like 1 interacts with nonstructural 5A and regulates hepatitis C virus propagation.
      Title: Adenosylhomocysteinase like 1 interacts with nonstructural 5A and regulates hepatitis C virus propagation.
    4. Domain I of hepatitis C virus NS5A associates with ACBD3 in a genotype-dependent manner.
      Title: Domain I of hepatitis C virus NS5A associates with ACBD3 in a genotype-dependent manner.
    5. A Novel Approach To Display Structural Proteins of Hepatitis C Virus Quasispecies in Patients Reveals a Key Role of E2 HVR1 in Viral Evolution.
      Title: A Novel Approach To Display Structural Proteins of Hepatitis C Virus Quasispecies in Patients Reveals a Key Role of E2 HVR1 in Viral Evolution.
    6. Genotypic Regulation of Type I Interferon Induction Pathways by Frameshift (F) Proteins of Hepatitis C Virus.
      Title: Genotypic Regulation of Type I Interferon Induction Pathways by Frameshift (F) Proteins of Hepatitis C Virus.
    7. OCIAD1 is a host mitochondrial substrate of the hepatitis C virus NS3-4A protease.
      Title: OCIAD1 is a host mitochondrial substrate of the hepatitis C virus NS3-4A protease.
    8. Analysis of drug-resistance-associated mutations and genetic barriers in hepatitis C virus NS5B sequences in China.
      Title: Analysis of drug-resistance-associated mutations and genetic barriers in hepatitis C virus NS5B sequences in China.
    9. Baseline resistance-associated substitutions in NS5A and NS5B were frequently observed in HCV-1-infected patients from Buenos Aires, Argentina but not related to treatment outcome.
      Title: Hepatitis C virus genotype 1 infection: Prevalence of NS5A and NS5B resistance-associated substitutions in naïve patients from Argentina.
    10. Two mutations of NS3 protein, hepatitis C virus (HCV) (NS3) are associated with HCV resistance: D168N and L153I. The L153I substitution decreases the S139 deprotonation susceptibility, and impairs the covalent binding between the residue S139 from NS3 and the electrophilic trap on boceprevir. Substitution D168N causes destabilization of hydrogen bonds of NS3/boceprevir.
      Title: A novel molecular mechanism to explain mutations of the HCV protease associated with resistance against covalently bound inhibitors.
    Submit: New GeneRIF Correction See all GeneRIFs (555)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General protein information

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    Preferred Names
    polyprotein;protein F
    Names
    core protein
    envelope protein E1
    envelope protein E2
    protein p7
    nonstructural protein NS2
    protease/helicase protein NS3
    nonstructural protein NS4A
    nonstructural protein NS4B
    nonstructural protein NS5A
    RNA-dependent RNA polymerase NS5B
    NP_803170.1
    • -2/+1 frameshift; although the exact location of the frameshift is unknown, it was mapped to codons 9 to 11 of the core protein coding sequence.

    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_004102.1 Reference assembly

      Range
      342..9377
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_671491.1 polyprotein [Hepatitis C virus genotype 1]

      See identical proteins and their annotated locations for NP_671491.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9ELS8
      Conserved Domains (16) summary
      pfam01001
      Location:1728 → 1921
      HCV_NS4b; Hepatitis C virus non-structural protein NS4b
      pfam01539
      Location:193 → 382
      HCV_env; Hepatitis C virus envelope glycoprotein E1
      pfam01560
      Location:386 → 729
      HCV_NS1; Hepatitis C virus non-structural protein E2/NS1
      pfam02907
      Location:1056 → 1204
      Peptidase_S29; Hepatitis C virus NS3 protease
      pfam01543
      Location:2 → 115
      HCV_capsid; Hepatitis C virus capsid protein
      pfam08301
      Location:2068 → 2168
      HCV_NS5a_1b; Hepatitis C virus non-structural 5a domain 1b
      pfam01538
      Location:811 → 1005
      HCV_NS2; Hepatitis C virus non-structural protein NS2
      smart00487
      Location:1228 → 1355
      DEXDc; DEAD-like helicases superfamily
      cd00046
      Location:1224 → 1351
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd00079
      Location:1378 → 1455
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
      pfam00998
      Location:2423 → 2934
      RdRP_3; Viral RNA dependent RNA polymerase
      pfam01006
      Location:1658 → 1711
      HCV_NS4a; Hepatitis C virus non-structural protein NS4a
      pfam01506
      Location:1974 → 1996
      HCV_NS5a; Hepatitis C virus non-structural 5a protein membrane anchor
      pfam01542
      Location:116 → 190
      HCV_core; Hepatitis C virus core protein
      pfam08300
      Location:2006 → 2067
      HCV_NS5a_1a; Hepatitis C virus non-structural 5a zinc finger domain
      pfam12941
      Location:2179 → 2420
      HCV_NS5a_C; HCV NS5a protein C-terminal region

    2. NP_751919.1 core protein

      UniProtKB/TrEMBL
      A0A075C2Z9, A0A075C392, A0A075C3A1, A0A075C3F8, A0A075C549, A0A075C551, A0A075C673, A0A077CW64, A0A077CW68, A0A077CW83, A0A077CW92, A0A077CW98, A0A077CWX7, A0A077CWY1, A0A077CWY6, A0A077CWZ4, A0A077CX03, A0A077CX08, A0A077CX16, A0A077CYR9, A0A077CYS6, A0A077CYU1, A0A077CYU8, A0A077CYW6, A0A077D125, A0A077D131, A0A077D140, A0A077D156, A0A077D1I0, A0A077D1I6, A0A077D1J1, A0A077D1J4, A0A077D1K6, A0A0A0YPR1, A0A221C814, B8Y460, C8CP42, D2E5C6, D2E5D5, D2E5D6, D2E5D7, D2E5D8, D2E5D9, D2E5E0, E2ICK2, G3FEN7, G3FEN8, L7Z1C8, L7Z1D2, L7Z1F6, L7Z1G2, L7Z5V0, L7Z5V3, L7Z5X5, L7Z6V5, L7Z6Y6, L7Z7D6, L7Z951, Q68113, Q68123, Q68124, Q68139, Q68149, Q6QY91, Q6QY92, Q6QY99, Q6QYA1, Q6QYA2, Q6QYA6, Q6QYA7, Q6QYB1, Q6QYB2, Q6QYB4, Q6QYB6, Q6QYB7, Q6QYB8, Q6QYB9, Q6QYC1, Q6QYC2, Q6QYC3, Q6QYE5, Q6QYE6, Q6QYE7, Q6QYE8, Q6QYE9, Q6QYF0, Q6QYF1, Q6QYF2, Q6QYF6, Q6QYF7, Q6QYF9, Q6QYG0, Q6QYG5, Q6QYJ7, Q6QYJ9, Q6QYK0, Q6QYK2, Q6QYK3, Q6QYK6, Q6QYK7, Q6QYK8, Q6QYK9, Q6QYL0, Q6QYL1, Q6QYL2, Q6QYL4, Q6QYL5, Q6QYM0, Q6QYN0, Q6QYQ9, Q6QYR0, Q6QYR1, Q6QYR2, Q6QYR3, Q6QYR4, Q6QYR5, Q6QYR6, Q6QYR7, Q6QYT2, Q6QYT4, Q6QYT5, Q6QYT6, Q6QYT7, Q6QYT8, Q6QYT9, Q6QYU0, Q6QYU1, Q6QYU2, Q6QYU3, Q6QZ00, Q6QZ04, Q6QZ15, Q6QZ18, Q6QZ19, Q6QZ20, Q6QZ21, Q6QZ22, Q6QZ25, Q6QZ26, Q6QZ27, Q6QZ28, Q6QZ29, Q6QZ31, Q6QZ32, Q6QZ56, Q6QZ58, Q6QZ60, Q6QZ61, Q6QZ62, Q6QZ63, Q6QZ64, Q6QZ67, Q6QZ80, Q6QZ81, Q6QZ82, Q6QZ83, Q6QZ84, Q6QZ85, Q6QZ87, Q6QZ88, Q6QZ91, Q6QZ99, Q6QZA0, Q6QZA1, Q6QZA2, Q6QZA3, Q6QZA4, Q6QZA5, Q6QZA6, Q6QZA7, Q6QZA9, Q6QZD2, Q6QZD3, Q6QZD8, Q6QZE2, Q6QZE3, Q6QZE5, Q6QZE7, Q6QZE8, Q6QZE9, Q6QZF1, Q6QZF2, Q6QZG0, Q6QZG4, Q6QZG5, Q6QZG6, Q6QZG7, Q6QZG8, Q6QZG9, Q6QZH0, Q6QZH1, Q6QZH2, Q6QZH3, Q6UNT8, Q8BES1
      Conserved Domains (2) summary
      pfam01543
      Location:2 → 115
      HCV_capsid; Hepatitis C virus capsid protein
      pfam01542
      Location:116 → 190
      HCV_core; Hepatitis C virus core protein

    3. NP_751920.1 envelope protein E1

      Conserved Domains (1) summary
      pfam01539
      Location:2 → 191
      HCV_env; Hepatitis C virus envelope glycoprotein E1

    4. NP_751921.1 envelope protein E2

      Conserved Domains (1) summary
      pfam01560
      Location:3 → 346
      HCV_NS1; Hepatitis C virus non-structural protein E2/NS1

    5. NP_751922.1 protein p7

    6. NP_751923.1 nonstructural protein NS2

      Conserved Domains (1) summary
      pfam01538
      Location:2 → 196
      HCV_NS2; Hepatitis C virus non-structural protein NS2

    7. NP_803144.1 protease/helicase protein NS3

      Conserved Domains (4) summary
      pfam02907
      Location:30 → 178
      Peptidase_S29; Hepatitis C virus NS3 protease
      smart00487
      Location:202 → 329
      DEXDc; DEAD-like helicases superfamily
      cd00046
      Location:198 → 325
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd00079
      Location:352 → 429
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...

    8. NP_751925.1 nonstructural protein NS4A

      UniProtKB/TrEMBL
      C9WU76, C9WUC9, C9WUD6, C9WUE1
      Conserved Domains (1) summary
      pfam01006
      Location:1 → 54
      HCV_NS4a; Hepatitis C virus non-structural protein NS4a

    9. NP_751926.1 nonstructural protein NS4B

    10. NP_751927.1 nonstructural protein NS5A

      Conserved Domains (4) summary
      pfam08301
      Location:96 → 196
      HCV_NS5a_1b; Hepatitis C virus non-structural 5a domain 1b
      pfam12941
      Location:207 → 448
      HCV_NS5a_C; HCV NS5a protein C-terminal region
      pfam01506
      Location:2 → 24
      HCV_NS5a; Hepatitis C virus non-structural 5a protein membrane anchor
      pfam08300
      Location:34 → 95
      HCV_NS5a_1a; Hepatitis C virus non-structural 5a zinc finger domain

    11. NP_751928.1 RNA-dependent RNA polymerase NS5B

      Conserved Domains (1) summary
      pfam00998
      Location:3 → 514
      RdRP_3; Viral RNA dependent RNA polymerase

    12. NP_803170.1 protein F [Hepatitis C virus genotype 1]

      Status: PROVISIONAL

      UniProtKB/Swiss-Prot
      P0C045
      Conserved Domains (1) summary
      pfam01543
      Location:66 → 127
      HCV_capsid; Hepatitis C virus capsid protein
    Protein Accession Links
    GenPept Link UniProtKB Link
    AAB66324.1

    Gene LinkOut