A0A7S9VN56 · A0A7S9VN56_SARS2

Function

function

Forms a primer, NSP9-pU, which is utilized by the polymerase for the initiation of RNA chains. Interacts with ribosome signal recognition particle RNA (SRP). Together with NSP8, suppress protein integration into the cell membrane, thereby disrupting host immune defenses.
Plays a role in viral RNA synthesis through two distinct activities. The N7-guanine methyltransferase activity plays a role in the formation of the cap structure GpppA-RNA. The proofreading exoribonuclease reduces the sensitivity of the virus to RNA mutagens during replication. This activity acts on both ssRNA and dsRNA in a 3'-5' direction.
RNA-directed RNA polymerase that catalyzes the transcription of viral genomic and subgenomic RNAs. Acts in complex with nsp7 and nsp8 to transcribe both the minus and positive strands of genomic RNA. The kinase-like NiRAN domain of NSP12 attaches one or more nucleotides to the amino terminus of NSP9, forming a covalent RNA-protein intermediate that serves as transcription/replication primer. Subgenomic RNAs (sgRNAs) are formed by discontinuous transcription: The polymerase has the ability to pause at transcription-regulating sequences (TRS) and jump to the leader TRS, resulting in a major deletion. This creates a series of subgenomic RNAs that are replicated, transcribed and translated. In addition, Nsp12 is a subunit of the viral RNA capping enzyme that catalyzes the RNA guanylyltransferase reaction for genomic and sub-genomic RNAs. Subsequently, the NiRAN domain transfers RNA to GDP, and forms the core cap structure GpppA-RNA.

Caution

Lacks conserved residue(s) required for the propagation of feature annotation.

Catalytic activity

Cofactor

Protein has several cofactor binding sites:
Mg2+ (UniProtKB | Rhea| CHEBI:18420 )

Mn2+ (UniProtKB | Rhea| CHEBI:29035 )

Features

Showing features for active site, binding site.

TypeIDPosition(s)Description
Active site6015
Active site6017
Active site6116
Active site6193
Active site6198
Binding site6256-6262S-adenosyl-L-methionine (UniProtKB | ChEBI)
Active site6686
Active site6701
Active site6741

GO annotations

AspectTerm
Cellular Componentcytoplasm
Cellular Componenthost cell endoplasmic reticulum-Golgi intermediate compartment
Cellular Componenthost cell membrane
Cellular Componenthost cell perinuclear region of cytoplasm
Cellular Componentmembrane
Molecular Function3'-5'-RNA exonuclease activity
Molecular Function5'-3' DNA helicase activity
Molecular FunctionATP binding
Molecular Functioncysteine-type endopeptidase activity
Molecular Functionendonuclease activity
Molecular FunctionG-quadruplex RNA binding
Molecular Functionlyase activity
Molecular FunctionmRNA (nucleoside-2'-O-)-methyltransferase activity
Molecular FunctionmRNA 5'-cap (guanine-N7-)-methyltransferase activity
Molecular Functionomega peptidase activity
Molecular FunctionRNA-dependent RNA polymerase activity
Molecular Functionsingle-stranded RNA binding
Molecular Functionzinc ion binding
Biological ProcessDNA-templated transcription
Biological Processinduction by virus of host autophagy
Biological Processproteolysis
Biological Processsymbiont-mediated degradation of host mRNA
Biological Processsymbiont-mediated perturbation of host ubiquitin-like protein modification
Biological Processsymbiont-mediated suppression of host ISG15-protein conjugation
Biological Processsymbiont-mediated suppression of host NF-kappaB cascade
Biological Processsymbiont-mediated suppression of host type I interferon-mediated signaling pathway
Biological Processviral protein processing
Biological Processviral RNA genome replication
Biological Processviral translational frameshifting
Biological Processvirus-mediated perturbation of host defense response

Keywords

Names & Taxonomy

Protein names

  • Recommended name
    ORF1ab polyprotein

Gene names

    • Name
      ORF1ab

Organism names

Accessions

  • Primary accession
    A0A7S9VN56

Subcellular Location

Features

Showing features for transmembrane.

TypeIDPosition(s)Description
Transmembrane2229-2253Helical
Transmembrane2328-2351Helical
Transmembrane2363-2387Helical
Transmembrane2773-2790Helical
Transmembrane3043-3065Helical
Transmembrane3077-3098Helical
Transmembrane3104-3124Helical
Transmembrane3136-3154Helical
Transmembrane3582-3605Helical
Transmembrane3611-3629Helical
Transmembrane3636-3657Helical
Transmembrane3683-3701Helical
Transmembrane3731-3755Helical
Transmembrane3767-3789Helical

Keywords

PTM/Processing

Features

Showing features for disulfide bond.

TypeIDPosition(s)Description
Disulfide bond2282↔2288

Keywords

Interaction

Subunit

Interacts with nsp7 and nsp8 to form the replication-transcription complex (RTC): nsp12, nsp7, two subunits of nsp8, and up to two subunits of nsp13. Interacts with nsp9.

Family & Domains

Features

Showing features for domain, region, compositional bias.

TypeIDPosition(s)Description
Domain12-127CoV Nsp1 globular
Domain148-179BetaCoV Nsp1 C-terminal
Domain183-456CoV Nsp2 N-terminal
Domain458-688CoV Nsp2 middle
Domain690-818CoV Nsp2 C-terminal
Domain821-929Ubiquitin-like
Region926-999Disordered
Compositional bias927-947Acidic residues
Compositional bias984-999Polar residues
Domain1025-1194Macro
Domain1231-1359Macro
Domain1367-1494Macro
Domain1496-1561DPUP
Domain1565-1620Ubiquitin-like
Domain1634-1898Peptidase C16
Domain1911-2021Nucleic acid-binding
Domain2046-2155G2M
Domain2247-23173Ecto
Region2395-2485Y1
Domain2395-2763CoV Nsp3 Y
Region2399-2412ZF1
Region2445-2455ZF2
Region2486-2580Y2
Region2486-2763CoV-Y
Region2581-2662Y3
Region2663-2763Y4
Domain3165-3263Nsp4C
Domain3264-3569Peptidase C30
Domain3860-3942RdRp Nsp7 cofactor
Domain3943-4140RdRp Nsp8 cofactor
Domain4141-4253Nsp9 ssRNA-binding
Domain4254-4392ExoN/MTase coactivator
Domain4399-4653NiRAN
Domain4658-4756Nsp12 Interface
Domain4757-5324Nsp12 RNA-dependent RNA polymerase
Domain5004-5166RdRp catalytic
Domain5325-5408CV ZBD
Domain5581-5932+RNA virus helicase C-terminal
Domain5997-6212ExoN
Domain6221-6452N7-MTase
Region6339-6353GpppA-binding
Domain6453-6513Nsp15 N-terminal oligomerization
Domain6514-6639AV-Nsp11N/CoV-Nsp15M
Domain6656-6795NendoU
Domain6800-7094Nidovirus-type SAM-dependent 2'-O-MTase

Sequence similarities

Belongs to the coronaviruses polyprotein 1ab family.

Keywords

Family and domain databases

Sequence

  • Sequence status
    Complete
  • Length
    7,096
  • Mass (Da)
    794,116
  • Last updated
    2021-06-02 v1
  • Checksum
    605F258790AC8FE4

Features

Showing features for compositional bias.

TypeIDPosition(s)Description
Compositional bias927-947Acidic residues
Compositional bias984-999Polar residues

Keywords

Sequence databases

Nucleotide SequenceProtein SequenceMolecule TypeStatus
MW298641
EMBL· GenBank· DDBJ
QPI70624.1
EMBL· GenBank· DDBJ
Genomic RNA
MW298642
EMBL· GenBank· DDBJ
QPI70636.1
EMBL· GenBank· DDBJ
Genomic RNA
MW298643
EMBL· GenBank· DDBJ
QPI70648.1
EMBL· GenBank· DDBJ
Genomic RNA

Similar Proteins

Disclaimer

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