U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Protein

    • Showing Current items.

    ORF1ab ORF1ab polyprotein [ Rat coronavirus Parker ]

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

    Summary

    Go to the top of the page Help
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    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

    Go to the top of the page Help
    Genomic Sequence:
    NC_012936.1

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    GeneRIFs: Gene References Into Functions

    General protein information

    Go to the top of the page Help
    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)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.