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    ORF1ab ORF1ab polyprotein [ Rat coronavirus Parker ]

    Gene ID: 11273175, updated on 20-Nov-2023

    Summary

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    Gene symbol
    ORF1ab
    Gene description
    ORF1ab polyprotein
    Locus tag
    PRCV_gp01
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rat coronavirus Parker (strain: Parker, nat-host: rat)
    Lineage
    Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Nidovirales; Cornidovirineae; Coronaviridae; Orthocoronavirinae; Betacoronavirus; Embecovirus
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    Genomic context

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    Sequence:
    NC_012936.1 (183..21700)

    NC_012936.1Genomic Context describing neighboring genes Neighboring gene ORF1a polyprotein Neighboring gene 32 kD non-structural protein Neighboring gene hemagglutinin-esterase

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_012936.1

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    GeneRIFs: Gene References Into Functions

    General protein information

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    Preferred Names
    ORF1ab polyprotein
    Names
    polyprotein pp1ab
    leader protein
    nsp2
    PL-PRO
    nsp4
    3C-like proteinase
    nsp6
    nsp7
    nsp8
    nsp9
    nsp10
    Pol
    Hel
    ExoN
    NendoU
    2'-O-methyltransferase
    YP_003029844.1
    • ORF1ab polyprotein is cleaved to yield the RNA-dependent RNA polymerase and other 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_012936.1 Reference assembly

      Range
      183..21700
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. YP_003029844.1 ORF1ab polyprotein [Rat coronavirus Parker]

      See identical proteins and their annotated locations for YP_003029844.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      C6GHR8, I1TMI0
      Conserved Domains (18) summary
      pfam11963
      Location:1 → 354
      DUF3477; Protein of unknown function (DUF3477)
      smart00506
      Location:1321 → 1451
      A1pp; Appr-1"-p processing enzyme
      pfam01443
      Location:5704 → 5950
      Viral_helicase1; Viral (Superfamily 1) RNA helicase
      pfam01831
      Location:1082 → 1330
      Peptidase_C16; Peptidase C16 family
      pfam05409
      Location:3356 → 3630
      Peptidase_C30; Coronavirus endopeptidase C30
      pfam06460
      Location:6875 → 7170
      NSP13; Coronavirus NSP13
      pfam06471
      Location:5979 → 6567
      NSP11; NSP11
      pfam06478
      Location:4464 → 4812
      Corona_RPol_N; Coronavirus RPol N-terminus
      pfam08710
      Location:4204 → 4313
      nsp9; nsp9 replicase
      pfam08715
      Location:1606 → 1913
      Viral_protease; Papain like viral protease
      pfam08716
      Location:3918 → 4005
      nsp7; nsp7 replicase
      pfam08717
      Location:4007 → 4203
      nsp8; nsp8 replicase
      pfam09401
      Location:4325 → 4443
      NSP10; RNA synthesis protein NSP10
      pfam13245
      Location:5657 → 5696
      AAA_19; Part of AAA domain
      pfam16251
      Location:1936 → 2059
      NAR; Nucleic acid-binding domain (NAR)
      pfam16348
      Location:3231 → 3325
      Corona_NSP4_C; Coronavirus nonstructural protein 4 C-terminus
      cl02808
      Location:4891 → 5141
      RT_like; RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, ...
      cl22977
      Location:5813 → 5952
      UvrD_C_2; UvrD-like helicase C-terminal domain

    2. YP_009924368.1 leader protein

      Conserved Domains (1) summary
      pfam11963
      Location:1 → 246
      DUF3477; Protein of unknown function (DUF3477)

    3. YP_009924369.1 nsp2

      Conserved Domains (1) summary
      cd21519
      Location:3 → 585
      cv_beta_Nsp2_MHV-like; betacoronavirus non-structural protein 2 (Nsp2) similar to MHV Nsp2/p65 and related proteins from betacoronaviruses in the A lineage

    4. YP_009924370.1 PL-PRO

      Conserved Domains (9) summary
      pfam11963
      Location:136 → 242
      DUF3477; Protein of unknown function (DUF3477)
      pfam01831
      Location:251 → 499
      Peptidase_C16; Peptidase C16 family
      cd21467
      Location:20 → 109
      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
      cd21524
      Location:701 → 775
      DPUP_MHV_Nsp3; DPUP (domain preceding Ubl2 and PLP2) of non-structural protein 3 (Nsp3) from murine hepatitis virus and related betacoronaviruses in the A lineage
      cd21824
      Location:1110 → 1228
      MHV-like_Nsp3_NAB; nucleic acid binding domain of non-structural protein 3 from murine hepatitis virus and betacoronavirus in the A lineage
      cd21812
      Location:1276 → 1396
      MHV-like_Nsp3_betaSM; betacoronavirus-specific marker of non-structural protein 3 from murine hepatitis virus and betacoronavirus in the A lineage
      cd21732
      Location:776 → 1073
      betaCoV_PLPro; betacoronavirus papain-like protease
      cd21714
      Location:1445 → 1999
      TM_Y_MHV-like_Nsp3_C; C-terminus of non-structural protein 3, including transmembrane and Y domains, from murine hepatitis virus and betacoronavirus in the A lineage
      cl00019
      Location:508 → 632
      Macro_SF; macrodomain superfamily

    5. YP_009924371.1 nsp4

      Conserved Domains (3) summary
      cd21473
      Location:11 → 33
      cv_Nsp4_TM; putative TM helix 1 [structural motif]
      pfam16348
      Location:400 → 494
      Corona_NSP4_C; Coronavirus nonstructural protein 4 C-terminus
      pfam19217
      Location:22 → 378
      CoV_NSP4_N; Coronavirus replicase NSP4, N-terminal

    6. YP_009924372.1 3C-like proteinase

      Conserved Domains (1) summary
      cd21666
      Location:4 → 297
      betaCoV_Nsp5_Mpro; betacoronavirus non-structural protein 5, also called Main protease (Mpro)

    7. YP_009924373.1 nsp6

      Conserved Domains (1) summary
      cd21560
      Location:1 → 287
      betaCoV-Nsp6; betacoronavirus non-structural protein 6

    8. YP_009924374.1 nsp7

      Conserved Domains (1) summary
      pfam08716
      Location:1 → 88
      nsp7; nsp7 replicase

    9. YP_009924375.1 nsp8

      Conserved Domains (1) summary
      cd21831
      Location:1 → 194
      betaCoV_Nsp8; betacoronavirus non-structural protein 8

    10. YP_009924376.1 nsp9

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

    11. YP_009924377.1 nsp10

      Conserved Domains (1) summary
      cd21901
      Location:1 → 130
      alpha_betaCoV_Nsp10; alphacoronavirus and betacoronavirus non-structural protein 14

    12. YP_009924378.1 Pol

      Conserved Domains (1) summary
      cd21593
      Location:4 → 928
      HCoV_HKU1-like_RdRp; human coronavirus HKU1 RNA-dependent RNA polymerase, also known as non-structural protein 12, and similar proteins from betacoronaviruses in the A lineage: responsible for replication and transcription of the viral RNA genome

    13. YP_009924379.1 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:250 → 589
      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_009924380.1 ExoN

      Conserved Domains (1) summary
      cd21659
      Location:3 → 519
      betaCoV_Nsp14; nonstructural protein 14 of betacoronavirus

    15. YP_009924381.1 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
      cd21167
      Location:65 → 187
      M_alpha_beta_cv_Nsp15-like; middle domain of alpha- and beta-coronavirus Nonstructural protein 15 (Nsp15), and related proteins
      cd21161
      Location:222 → 372
      NendoU_cv_Nsp15-like; Nidoviral uridylate-specific endoribonuclease (NendoU) domain of coronavirus Nonstructural Protein 15 (Nsp15) and related proteins

    16. YP_009924382.1 2'-O-methyltransferase

      Conserved Domains (1) summary
      pfam06460
      Location:2 → 297
      NSP13; Coronavirus NSP13
    Nucleotide Protein
    Heading Accession and Version

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