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    ORF1ab ORF1a polyprotein;ORF1ab polyprotein [ Betacoronavirus England 1 ]

    Gene ID: 37616440, updated on 18-Aug-2023

    Summary

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    Gene symbol
    ORF1ab
    Gene description
    ORF1a polyprotein;ORF1ab polyprotein
    Locus tag
    D1P20_gp01
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Betacoronavirus England 1 (strain: England 1, isolate: H123990006, nat-host: Homo sapiens)
    Lineage
    Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Nidovirales; Cornidovirineae; Coronaviridae; Orthocoronavirinae; Betacoronavirus; Merbecovirus
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    Genomic context

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    Sequence:
    NC_038294.1 (278..21513)

    NC_038294.1Genomic Context describing neighboring genes Neighboring gene spike protein Neighboring gene NS3A protein Neighboring gene NS3B protein Neighboring gene NS3C protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_038294.1

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Full-genome deep sequencing and phylogenetic analysis of novel human betacoronavirus. Cotten M, et al. Emerg Infect Dis, 2013 May. PMID 23693015, Free PMC Article
    2. Middle East respiratory syndrome coronavirus (MERS-CoV): announcement of the Coronavirus Study Group. de Groot RJ, et al. J Virol, 2013 Jul. PMID 23678167, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General protein information

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    Preferred Names
    ORF1a polyprotein;ORF1ab polyprotein
    Names
    polyprotein pp1a
    polyprotein pp1ab
    nsp1
    nsp2
    PLpro
    nsp4
    3C-like cysteine proteinase
    nsp6
    nsp7
    nsp8
    nsp9
    nsp10
    RNA-dependent RNA polymerase
    Hel
    3' to 5' exonuclease, N7-methyltransferase
    NendoU
    2'-O-methyltransferase
    nsp1
    nsp2
    PLpro
    nsp4
    3C-like cysteine proteinase
    nsp6
    nsp7
    nsp8
    nsp9
    nsp10
    nsp11
    YP_007188577.3
    • ORF1ab polyprotein is cleaved to yield the RNA-dependent RNA polymerase and other nonstructural proteins
    YP_007188578.1
    • ORF1a polyprotein is cleaved to yield nonstructural proteins

    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_038294.1 Reference assembly

      Range
      278..21513
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. YP_007188577.3 ORF1ab polyprotein [Betacoronavirus England 1]

      Status: PROVISIONAL

      UniProtKB/Swiss-Prot
      K9N7C7
      UniProtKB/TrEMBL
      M1S8Z6
      Conserved Domains (16) summary
      COG1112
      Location:5657 → 5899
      DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
      PRK10811
      Location:963 → 1092
      rne; ribonuclease E; Reviewed
      pfam06471
      Location:5912 → 6499
      NSP11
      pfam06478
      Location:4392 → 4744
      Corona_RPol_N; Coronavirus RPol N-terminus
      pfam08710
      Location:4128 → 4237
      nsp9; nsp9 replicase
      pfam08716
      Location:3846 → 3928
      nsp7; nsp7 replicase
      pfam08717
      Location:3932 → 4127
      nsp8; nsp8 replicase
      pfam09401
      Location:4249 → 4368
      NSP10; RNA synthesis protein NSP10
      pfam16251
      Location:1831 → 1952
      NAR; Nucleic acid-binding domain (NAR)
      pfam11633
      Location:1281 → 1384
      SUD-M; Single-stranded poly(A) binding domain
      cd17934
      Location:5574 → 5753
      DEXXQc_Upf1-like; DEXXQ-box helicase domain of Upf1-like helicase
      pfam01661
      Location:1143 → 1243
      Macro; Macro domain
      pfam05409
      Location:3276 → 3566
      Peptidase_C30; Coronavirus endopeptidase C30
      pfam06460
      Location:6777 → 7073
      NSP13; Coronavirus NSP13
      pfam08715
      Location:1484 → 1807
      Viral_protease; Papain like viral protease
      pfam16348
      Location:3160 → 3245
      Corona_NSP4_C; Coronavirus nonstructural protein 4 C-terminus

    2. YP_009944292.1 nsp1

      Conserved Domains (1) summary
      cd21878
      Location:23 → 190
      MERS-CoV-like_Nsp1; non-structural protein 1 from Middle East respiratory syndrome-related coronavirus and betacoronavirus in the C lineage

    3. YP_009944293.1 nsp2

      Conserved Domains (1) summary
      cd21517
      Location:1 → 660
      cv_beta_Nsp2_MERS-like; betacoronavirus non-structural protein 2 (Nsp2) similar to MERS-CoV Nsp2, and related proteins from betacoronaviruses in the C lineage

    4. YP_009944294.1 PLpro

      Conserved Domains (9) summary
      PRK10811
      Location:110 → 239
      rne; ribonuclease E; Reviewed
      cd21467
      Location:21 → 108
      Ubl1_cv_Nsp3_N-like; first ubiquitin-like (Ubl) domain located at the N-terminus of coronavirus SARS-CoV non-structural protein 3 (Nsp3) and related proteins
      cd21523
      Location:550 → 625
      SUD_C_MERS-CoV_Nsp3; C-terminal SARS-Unique Domain (SUD) of non-structural protein 3 (Nsp3) from Middle East respiratory syndrome-related coronavirus and related betacoronaviruses in the C lineage
      cd21557
      Location:286 → 409
      Macro_X_Nsp3-like; X-domain of viral non-structural protein 3 and related macrodomains
      cd21563
      Location:427 → 546
      Macro_cv_SUD-M_Nsp3-like; SUD-M macrodomain of the SARS Unique Domain (SUD) of SARS-CoV non-structural protein 3 and related macrodomains
      cd21823
      Location:977 → 1099
      MERS-CoV-like_Nsp3_NAB; nucleic acid binding domain of non-structural protein 3 from Middle East respiratory syndrome-related coronavirus and betacoronavirus in the C lineage
      cd21815
      Location:1115 → 1224
      MERS-CoV-like_Nsp3_betaSM; betacoronavirus-specific marker of non-structural protein 3 from Middle East respiratory syndrome-related coronavirus and betacoronavirus in the C lineage
      cd21732
      Location:630 → 940
      betaCoV_PLPro; betacoronavirus papain-like protease
      cd21716
      Location:1322 → 1887
      TM_Y_MERS-CoV-like_Nsp3_C; C-terminus of non-structural protein 3, including transmembrane and Y domains, from Middle East respiratory syndrome-related coronavirus and betacoronavirus in the C lineage

    5. YP_009944295.1 nsp4

      Conserved Domains (2) summary
      cd21473
      Location:20 → 401
      cv_Nsp4_TM; coronavirus non-structural protein 4 (Nsp4) transmembrane domain
      pfam16348
      Location:420 → 505
      Corona_NSP4_C; Coronavirus nonstructural protein 4 C-terminus

    6. YP_009944296.1 3C-like cysteine proteinase

      Conserved Domains (1) summary
      cd21666
      Location:4 → 300
      betaCoV_Nsp5_Mpro; betacoronavirus non-structural protein 5, also called Main protease (Mpro)

    7. YP_009944297.1 nsp6

      Conserved Domains (1) summary
      cd21560
      Location:1 → 292
      betaCoV-Nsp6; betacoronavirus non-structural protein 6

    8. YP_009944298.1 nsp7

      Conserved Domains (1) summary
      cd21827
      Location:1 → 83
      betaCoV_Nsp7; betacoronavirus non-structural protein 7

    9. YP_009944299.1 nsp8

      Conserved Domains (1) summary
      cd21831
      Location:4 → 199
      betaCoV_Nsp8; betacoronavirus non-structural protein 8

    10. YP_009944300.1 nsp9

      Conserved Domains (1) summary
      cd21898
      Location:1 → 110
      betaCoV_Nsp9; betacoronavirus non-structural protein 9

    11. YP_009944301.1 nsp10

      Conserved Domains (1) summary
      cd21901
      Location:1 → 131
      alpha_betaCoV_Nsp10; alphacoronavirus and betacoronavirus non-structural protein 14

    12. YP_009944302.1 RNA-dependent RNA polymerase

      Conserved Domains (1) summary
      cl40470
      Location:4 → 933
      CoV_RdRp; coronavirus RNA-dependent RNA polymerase, also known as non-structural protein 12: responsible for replication and transcription of the viral RNA genome

    13. YP_009944303.1 Hel

      Conserved Domains (4) summary
      cd21401
      Location:1 → 95
      ZBD_cv_Nsp13-like; Cys/His rich zinc-binding domain (CH/ZBD) of coronavirus SARS NSP13 helicase and related proteins
      cd21409
      Location:150 → 228
      1B_cv_Nsp13-like; 1B domain of coronavirus SARS NSP13 helicase and related proteins
      cd21722
      Location:251 → 590
      betaCoV_Nsp13-helicase; helicase domain of betacoronavirus non-structural protein 13
      cd21689
      Location:99 → 146
      stalk_CoV_Nsp13-like; stalk domain of coronavirus Nsp13 helicase and related proteins

    14. YP_009944304.1 3' to 5' exonuclease, N7-methyltransferase

      Conserved Domains (1) summary
      cd21659
      Location:5 → 522
      betaCoV_Nsp14; nonstructural protein 14 of betacoronavirus

    15. YP_009944305.1 NendoU

      Conserved Domains (3) summary
      cd21171
      Location:1 → 61
      NTD_alpha_beta_cv_Nsp15-like; N-terminal domain of alpha- and beta-coronavirus Nonstructural protein 15 (Nsp15), and related proteins
      cd21165
      Location:65 → 193
      M_cv-Nsp15-like; middle domain of coronavirus Nonstructural protein 15 (Nsp15), and related proteins
      cd21161
      Location:191 → 341
      NendoU_cv_Nsp15-like; Nidoviral uridylate-specific endoribonuclease (NendoU) domain of coronavirus Nonstructural Protein 15 (Nsp15) and related proteins

    16. YP_009944306.1 2'-O-methyltransferase

      UniProtKB/TrEMBL
      T2B9M2
      Conserved Domains (1) summary
      pfam06460
      Location:2 → 297
      NSP13; Coronavirus NSP13

    17. YP_007188578.1 ORF1a polyprotein [Betacoronavirus England 1]

      Status: PROVISIONAL

      UniProtKB/Swiss-Prot
      K9N638
      UniProtKB/TrEMBL
      A0A023SGG5, M1RUQ1, W5ZZR4
      Conserved Domains (11) summary
      PRK10811
      Location:963 → 1092
      rne; ribonuclease E; Reviewed
      pfam08710
      Location:4128 → 4237
      nsp9; nsp9 replicase
      pfam08716
      Location:3846 → 3928
      nsp7; nsp7 replicase
      pfam08717
      Location:3932 → 4127
      nsp8; nsp8 replicase
      pfam09401
      Location:4249 → 4368
      NSP10; RNA synthesis protein NSP10
      pfam16251
      Location:1831 → 1952
      NAR; Nucleic acid-binding domain (NAR)
      pfam11633
      Location:1281 → 1384
      SUD-M; Single-stranded poly(A) binding domain
      pfam01661
      Location:1143 → 1243
      Macro; Macro domain
      pfam05409
      Location:3276 → 3566
      Peptidase_C30; Coronavirus endopeptidase C30
      pfam08715
      Location:1484 → 1807
      Viral_protease; Papain like viral protease
      pfam16348
      Location:3160 → 3245
      Corona_NSP4_C; Coronavirus nonstructural protein 4 C-terminus

    18. YP_009944281.1 nsp1

      Conserved Domains (1) summary
      cd21878
      Location:23 → 190
      MERS-CoV-like_Nsp1; non-structural protein 1 from Middle East respiratory syndrome-related coronavirus and betacoronavirus in the C lineage

    19. YP_009944282.1 nsp2

      Conserved Domains (1) summary
      cd21517
      Location:1 → 660
      cv_beta_Nsp2_MERS-like; betacoronavirus non-structural protein 2 (Nsp2) similar to MERS-CoV Nsp2, and related proteins from betacoronaviruses in the C lineage

    20. YP_009944283.1 PLpro

      Conserved Domains (9) summary
      PRK10811
      Location:110 → 239
      rne; ribonuclease E; Reviewed
      cd21467
      Location:21 → 108
      Ubl1_cv_Nsp3_N-like; first ubiquitin-like (Ubl) domain located at the N-terminus of coronavirus SARS-CoV non-structural protein 3 (Nsp3) and related proteins
      cd21523
      Location:550 → 625
      SUD_C_MERS-CoV_Nsp3; C-terminal SARS-Unique Domain (SUD) of non-structural protein 3 (Nsp3) from Middle East respiratory syndrome-related coronavirus and related betacoronaviruses in the C lineage
      cd21557
      Location:286 → 409
      Macro_X_Nsp3-like; X-domain of viral non-structural protein 3 and related macrodomains
      cd21563
      Location:427 → 546
      Macro_cv_SUD-M_Nsp3-like; SUD-M macrodomain of the SARS Unique Domain (SUD) of SARS-CoV non-structural protein 3 and related macrodomains
      cd21823
      Location:977 → 1099
      MERS-CoV-like_Nsp3_NAB; nucleic acid binding domain of non-structural protein 3 from Middle East respiratory syndrome-related coronavirus and betacoronavirus in the C lineage
      cd21815
      Location:1115 → 1224
      MERS-CoV-like_Nsp3_betaSM; betacoronavirus-specific marker of non-structural protein 3 from Middle East respiratory syndrome-related coronavirus and betacoronavirus in the C lineage
      cd21732
      Location:630 → 940
      betaCoV_PLPro; betacoronavirus papain-like protease
      cd21716
      Location:1322 → 1887
      TM_Y_MERS-CoV-like_Nsp3_C; C-terminus of non-structural protein 3, including transmembrane and Y domains, from Middle East respiratory syndrome-related coronavirus and betacoronavirus in the C lineage

    21. YP_009944284.1 nsp4

      Conserved Domains (2) summary
      cd21473
      Location:20 → 401
      cv_Nsp4_TM; coronavirus non-structural protein 4 (Nsp4) transmembrane domain
      pfam16348
      Location:420 → 505
      Corona_NSP4_C; Coronavirus nonstructural protein 4 C-terminus

    22. YP_009944285.1 3C-like cysteine proteinase

      Conserved Domains (1) summary
      cd21666
      Location:4 → 300
      betaCoV_Nsp5_Mpro; betacoronavirus non-structural protein 5, also called Main protease (Mpro)

    23. YP_009944286.1 nsp6

      Conserved Domains (1) summary
      cd21560
      Location:1 → 292
      betaCoV-Nsp6; betacoronavirus non-structural protein 6

    24. YP_009944287.1 nsp7

      Conserved Domains (1) summary
      cd21827
      Location:1 → 83
      betaCoV_Nsp7; betacoronavirus non-structural protein 7

    25. YP_009944288.1 nsp8

      Conserved Domains (1) summary
      cd21831
      Location:4 → 199
      betaCoV_Nsp8; betacoronavirus non-structural protein 8

    26. YP_009944289.1 nsp9

      Conserved Domains (1) summary
      cd21898
      Location:1 → 110
      betaCoV_Nsp9; betacoronavirus non-structural protein 9

    27. YP_009944290.1 nsp10

      Conserved Domains (1) summary
      cd21901
      Location:1 → 131
      alpha_betaCoV_Nsp10; alphacoronavirus and betacoronavirus non-structural protein 14

    28. YP_009944291.1 nsp11

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    K9N638.1
    K9N7C7.1

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