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Entry version 73 (12 Aug 2020)
Sequence version 1 (10 Jun 2008)
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Protein

Replicase polyprotein 1a

Gene

1a

Organism
Bat coronavirus HKU3 (BtCoV) (SARS-like coronavirus HKU3)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

The papain-like proteinase (PL-PRO) is responsible for the cleavages located at the N-terminus of replicase polyprotein. In addition, PL-PRO possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF-3 (By similarity).By similarity
Responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK. Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function (By similarity).PROSITE-ProRule annotation
Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter.By similarity
Nsp9 is a ssRNA-binding protein.By similarity
binds to the 40S ribosomal subunit and inhibits host translation. The nsp1-40S ribosome complex further induces an endonucleolytic cleavage near the 5'UTR of host mRNAs, targeting them for degradation. By suppressing host gene expression, nsp1 facilitates efficient viral gene expression in infected cells and evasion from host immune response (By similarity).By similarity

Miscellaneous

Bat coronavirus HKU3 is highly similar to SARS-CoV (SARS-like).

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

  • TSAVLQ-|-SGFRK-NH(2) and SGVTFQ-|-GKFKK the two peptides corresponding to the two self-cleavage sites of the SARS 3C-like proteinase are the two most reactive peptide substrates. The enzyme exhibits a strong preference for substrates containing Gln at P1 position and Leu at P2 position. EC:3.4.22.69
  • Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal). EC:3.4.19.12

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei1645For PL-PRO activityPROSITE-ProRule annotation1
Active sitei1806For PL-PRO activityPROSITE-ProRule annotation1
Active sitei3275For 3CL-PRO activityPROSITE-ProRule annotation1
Active sitei3379For 3CL-PRO activityPROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section specifies the position(s) and type(s) of zinc fingers within the protein.<p><a href='/help/zn_fing' target='_top'>More...</a></p>Zinc fingeri1723 – 1760C4-typePROSITE-ProRule annotationAdd BLAST38
Zinc fingeri4298 – 4314By similarityAdd BLAST17
Zinc fingeri4341 – 4354By similarityAdd BLAST14

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionHydrolase, Protease, RNA-binding, Thiol protease
Biological processActivation of host autophagy by virus, Decay of host mRNAs by virus, Eukaryotic host gene expression shutoff by virus, Eukaryotic host translation shutoff by virus, Host gene expression shutoff by virus, Host mRNA suppression by virus, Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host interferon signaling pathway by virus, Inhibition of host IRF3 by virus, Inhibition of host ISG15 by virus, Inhibition of host RLR pathway by virus, Modulation of host ubiquitin pathway by viral deubiquitinase, Modulation of host ubiquitin pathway by virus, Ubl conjugation pathway, Viral immunoevasion
LigandMetal-binding, Zinc

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Replicase polyprotein 1a
Short name:
pp1a
Alternative name(s):
ORF1a polyprotein
Cleaved into the following 11 chains:
Non-structural protein 1
Short name:
nsp1
Alternative name(s):
Leader protein
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p65 homolog
Non-structural protein 3 (EC:3.4.19.12, EC:3.4.22.69)
Short name:
nsp3
Alternative name(s):
PL2-PRO
Papain-like proteinase
Short name:
PL-PRO
Non-structural protein 4
Short name:
nsp4
3C-like proteinase (EC:3.4.22.-)
Short name:
3CL-PRO
Short name:
3CLp
Alternative name(s):
nsp5
Non-structural protein 6
Short name:
nsp6
Non-structural protein 7
Short name:
nsp7
Non-structural protein 8
Short name:
nsp8
Non-structural protein 9
Short name:
nsp9
Non-structural protein 10
Short name:
nsp10
Alternative name(s):
Growth factor-like peptide
Short name:
GFL
Non-structural protein 11
Short name:
nsp11
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
ORF Names:1a
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiBat coronavirus HKU3 (BtCoV) (SARS-like coronavirus HKU3)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri442736 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiVirusesRiboviriaNidoviralesCornidovirineaeCoronaviridaeOrthocoronavirinaeBetacoronavirusSarbecovirus
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section only exists in viral entries and indicates the host(s) either as a specific organism or taxonomic group of organisms that are susceptible to be infected by a virus.<p><a href='/help/virus_host' target='_top'>More...</a></p>Virus hostiRhinolophus sinicus (Chinese rufous horseshoe bat) [TaxID: 89399]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000007450 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Genome

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

  • host perinuclear region By similarity
  • Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes (By similarity).By similarity
  • host perinuclear region By similarity
  • Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes (By similarity).By similarity
  • host perinuclear region By similarity
  • Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes (By similarity).By similarity
  • host perinuclear region By similarity
  • Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes (By similarity).By similarity

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular%5Flocation%5Fsection">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei2197 – 2217HelicalSequence analysisAdd BLAST21
Transmembranei2298 – 2318HelicalSequence analysisAdd BLAST21
Transmembranei2345 – 2365HelicalSequence analysisAdd BLAST21
Transmembranei2744 – 2764HelicalSequence analysisAdd BLAST21
Transmembranei2986 – 3006HelicalSequence analysisAdd BLAST21
Transmembranei3016 – 3036HelicalSequence analysisAdd BLAST21
Transmembranei3048 – 3068HelicalSequence analysisAdd BLAST21
Transmembranei3071 – 3091HelicalSequence analysisAdd BLAST21
Transmembranei3099 – 3119HelicalSequence analysisAdd BLAST21
Transmembranei3136 – 3156HelicalSequence analysisAdd BLAST21
Transmembranei3558 – 3578HelicalSequence analysisAdd BLAST21
Transmembranei3580 – 3600HelicalSequence analysisAdd BLAST21
Transmembranei3606 – 3626HelicalSequence analysisAdd BLAST21
Transmembranei3652 – 3672HelicalSequence analysisAdd BLAST21
Transmembranei3679 – 3698HelicalSequence analysisAdd BLAST20
Transmembranei3722 – 3742HelicalSequence analysisAdd BLAST21
Transmembranei3750 – 3770HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

Keywords - Cellular componenti

Host cytoplasm, Host membrane, Membrane

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00003380741 – 4376Replicase polyprotein 1aAdd BLAST4376
ChainiPRO_00003380751 – 179Non-structural protein 1By similarityAdd BLAST179
ChainiPRO_0000338076180 – 818Non-structural protein 2By similarityAdd BLAST639
ChainiPRO_0000338077819 – 2734Non-structural protein 3By similarityAdd BLAST1916
ChainiPRO_00003380782735 – 3234Non-structural protein 4By similarityAdd BLAST500
ChainiPRO_00003380793235 – 35403C-like proteinaseBy similarityAdd BLAST306
ChainiPRO_00003380803541 – 3830Non-structural protein 6By similarityAdd BLAST290
ChainiPRO_00003380813831 – 3913Non-structural protein 7By similarityAdd BLAST83
ChainiPRO_00003380823914 – 4111Non-structural protein 8By similarityAdd BLAST198
ChainiPRO_00003380834112 – 4224Non-structural protein 9By similarityAdd BLAST113
ChainiPRO_00003380844225 – 4363Non-structural protein 10By similarityAdd BLAST139
ChainiPRO_00003380854364 – 4376Non-structural protein 11Sequence analysisAdd BLAST13

<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM/processing</a> section describes post-translational modifications (PTMs). This subsection <strong>complements</strong> the information provided at the sequence level or describes modifications for which <strong>position-specific data is not yet available</strong>.<p><a href='/help/post-translational_modification' target='_top'>More...</a></p>Post-translational modificationi

Specific enzymatic cleavages in vivo by its own proteases yield mature proteins. 3CL-PRO and PL-PRO proteinases are autocatalytically processed (By similarity).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections ('Function', 'PTM / Processing', 'Pathology and Biotech') according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei179 – 180Cleavage; by PL-PROBy similarity2
Sitei818 – 819Cleavage; by PL-PROBy similarity2
Sitei3234 – 3235Cleavage; by 3CL-PROBy similarity2
Sitei3540 – 3541Cleavage; by 3CL-PROBy similarity2
Sitei3830 – 3831Cleavage; by 3CL-PROBy similarity2
Sitei3913 – 3914Cleavage; by 3CL-PROBy similarity2
Sitei4111 – 4112Cleavage; by 3CL-PROBy similarity2
Sitei4224 – 4225Cleavage; by 3CL-PROBy similarity2
Sitei4363 – 4364Cleavage; by 3CL-PROBy similarity2

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
P0C6F8

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

3CL-PRO exists as monomer and homodimer. Eight copies of nsp7 and eight copies of nsp8 assemble to form a heterohexadecamer. Nsp9 is a dimer. Nsp10 forms a dodecamer (By similarity).

By similarity

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P0C6F8

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini998 – 1164MacroPROSITE-ProRule annotationAdd BLAST167
Domaini1605 – 1869Peptidase C16PROSITE-ProRule annotationAdd BLAST265
Domaini3235 – 3540Peptidase C30PROSITE-ProRule annotationAdd BLAST306

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni2086 – 2365HD1By similarityAdd BLAST280
Regioni2749 – 3156HD2By similarityAdd BLAST408
Regioni3558 – 3770HD3By similarityAdd BLAST213

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi930 – 996Glu-richAdd BLAST67
Compositional biasi2204 – 2207Poly-Leu4
Compositional biasi3760 – 3763Poly-Cys4

<p>This subsection of the 'Family and domains' section provides general information on the biological role of a domain. The term 'domain' is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

The hydrophobic domains (HD) could mediate the membrane association of the replication complex and thereby alter the architecture of the host cell membrane.By similarity

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri1723 – 1760C4-typePROSITE-ProRule annotationAdd BLAST38
Zinc fingeri4298 – 4314By similarityAdd BLAST17
Zinc fingeri4341 – 4354By similarityAdd BLAST14

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix, Zinc-finger

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.150.420, 1 hit
1.10.1840.10, 1 hit
1.10.8.1190, 1 hit
1.10.8.370, 1 hit
2.30.30.590, 1 hit
2.40.10.10, 2 hits
2.40.10.250, 1 hit
2.40.10.290, 1 hit
3.10.20.350, 1 hit
3.10.20.540, 1 hit
3.40.220.10, 1 hit
3.40.220.20, 1 hit
3.40.220.30, 1 hit
3.40.50.11020, 1 hit
3.90.70.90, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR022733, DPUP_SUD_C_bCoV
IPR002589, Macro_dom
IPR043472, Macro_dom-like
IPR042570, NAR_sf
IPR036333, NSP10_sf_CoV
IPR021590, NSP1_bCoV
IPR038030, NSP1_sf_bCoV
IPR024375, NSP3_bCoV
IPR024358, NSP3_N_bCoV
IPR032592, NSP3_NAR_bCoV
IPR038166, NSP3_PL2pro_sf_CoV
IPR038400, NSP3_SUD-M_sf_bCoV
IPR043478, NSP3_SUD-N_bCoV
IPR038083, NSP3A-like
IPR032505, NSP4_C_CoV
IPR038123, NSP4_C_sf_CoV
IPR014828, NSP7_CoV
IPR037204, NSP7_sf_CoV
IPR014829, NSP8_CoV-like
IPR037230, NSP8_sf_CoV
IPR014822, NSP9_CoV
IPR036499, NSP9_sf_CoV
IPR013016, Peptidase_C16_CoV
IPR008740, Peptidase_C30_CoV
IPR043477, Peptidase_C30_dom3_CoV
IPR009003, Peptidase_S1_PA
IPR043504, Peptidase_S1_PA_chymotrypsin
IPR043177, PLpro_N_sf_CoV
IPR043503, PLpro_palm_finger_dom_CoV
IPR043178, PLpro_thumb_sf_CoV
IPR018995, RNA_synth_NSP10_CoV

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF16348, Corona_NSP4_C, 1 hit
PF12379, DUF3655, 1 hit
PF01661, Macro, 1 hit
PF16251, NAR, 1 hit
PF11501, Nsp1, 1 hit
PF09401, NSP10, 1 hit
PF12124, Nsp3_PL2pro, 1 hit
PF08716, nsp7, 1 hit
PF08717, nsp8, 1 hit
PF08710, nsp9, 1 hit
PF05409, Peptidase_C30, 1 hit
PF11633, SUD-M, 1 hit
PF08715, Viral_protease, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00506, A1pp, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF101816, SSF101816, 1 hit
SSF140367, SSF140367, 1 hit
SSF143076, SSF143076, 1 hit
SSF144246, SSF144246, 1 hit
SSF159936, SSF159936, 1 hit
SSF160099, SSF160099, 1 hit
SSF50494, SSF50494, 1 hit
SSF52949, SSF52949, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51442, M_PRO, 1 hit
PS51154, MACRO, 1 hit
PS51124, PEPTIDASE_C16, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequences (2)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 <p>This subsection of the 'Sequence' section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform. This section is only present in reviewed entries, i.e. in UniProtKB/Swiss-Prot.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by ribosomal frameshifting. AlignAdd to basket
Isoform Replicase polyprotein 1a (identifier: P0C6F8-1) [UniParc]FASTAAdd to basket
Also known as: pp1a, ORF1a polyprotein

This isoform has been chosen as the <div> <p><b>What is the canonical sequence?</b><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MESLVLGVNE KTHVQLSLPV LQVRDVLVRG FGDSVEEALS EAREHLKNGT
60 70 80 90 100
CGLVELEKGV LPQLEQPYVF IKRSDALSTN HGHKVVELVA ELDGIQFGRS
110 120 130 140 150
GITLGVLVPH VGETPIAYRN VLLRKNGNKG AGGHSFGIDL KSYDLGDELG
160 170 180 190 200
TDPIEDYEQN WNTKHGSGAL RELTRELNGG VVTRYVDNNF CGPDGYPLEC
210 220 230 240 250
IKDFLARAGK SMCTLSEQLD YIESKRGVYC CREHEHEIVW FTERSEKSYE
260 270 280 290 300
HQTPFEIKSA KKFDTFKGEC PKFVFPLNSK VKVIQPRVEK KKTEGFMGRI
310 320 330 340 350
RSVYPVATPQ ECNDMHLSTL MKCNHCDEVS WQTCDFLKAT CEQCGTENLV
360 370 380 390 400
CEGPTTCGYL PTNAVVKMPC PACQDPEVGP EHSVADYHNH SNIETRLRKG
410 420 430 440 450
GRTKCFGGCV FSYVGCYNKR AYWVPRASAN IGANHTGITG ENVETLNEDL
460 470 480 490 500
LEILNRERVN INIVGDFRFN EEVAIILASF SASPSAFIET VKGLDYKSFK
510 520 530 540 550
VIVESCGNYK VTNGKPVTGA WNIGQQRSIL TPLCGFPSQA AGVIRSIFSR
560 570 580 590 600
TLDAANHSIL DLQRAAVTTL DGISEQSLRL VDAMVYTSDL LTNSVVVMAY
610 620 630 640 650
VTGGLVQQTM QWLSNMLGTA VDKLKPVFTW VEAKLSAGVE FLRDAWEILK
660 670 680 690 700
FLITGVFDVI KGQIQVATDN IKECVKIFLG VVNKALEMCL DQVTIAGTKL
710 720 730 740 750
RALNLGEVFI AQSRGLYRQC IRGKEQLQLL MPLKAPKEVT FLEGDAHDTV
760 770 780 790 800
LTSEEVVLKS GELEALETPI DSFTSGAVVG TPVCINGLML LELENKEQYC
810 820 830 840 850
ALSPGLLATN NVFRLKGGAP VKGVTFGEDT VLEVQGYKNV KITFELDVRV
860 870 880 890 900
DKVLNEKCSV YTVESGTEVT EFACVVAEAV VKTLQPVSDL LTPMGIDLDE
910 920 930 940 950
WSVATFYLFD DAGEEKLSSR MYCSFYPPDE EEDCEECEDE EETCEHEYGT
960 970 980 990 1000
EDDYKGLPLE FGASTETPHV EEEEEEEDWL DDAIEAEPEP EPLPEEPVNQ
1010 1020 1030 1040 1050
FVGYLKLTDN VAIKCIDIVK EAQSAKPTVI VNAANTHLKH GGGVAGALNK
1060 1070 1080 1090 1100
ATNGAMQNES DEYIRQNGPL TVGGSCLLSG HNLAEKCLHV VGPNLNAGED
1110 1120 1130 1140 1150
VQLLKRAYEN FNSQDVLLAP LLSAGIFGAK PLQSLKMCVE IVRTQVYLAV
1160 1170 1180 1190 1200
NDKSLYDQIV LDYLDSLKPK VESPNKEEEP KLEEPKAVQP VAEKPVDVKP
1210 1220 1230 1240 1250
KIKACIDEVT TTLEETKFLT NKLLLFADIN GKLYQDSQNM LRGEDMSFLE
1260 1270 1280 1290 1300
KDAPYIVGDV ITSGDITCVI IPAKKSGGTT EMLARALKEV PVAEYITTYP
1310 1320 1330 1340 1350
GQGCAGYTLE EAKTALKKCK SAFYVLPSET PNEKEEVLGT VSWNLREMLA
1360 1370 1380 1390 1400
HAEETRKLMP ICLDVRAIMA TIQRKYKGIK VQEGIVDYGV RFFFYTSKEP
1410 1420 1430 1440 1450
VASIITKLNS LNEPLVTMPI GYVTHGLNLE EAARCMRSLK APAVVSVSSP
1460 1470 1480 1490 1500
DAVTAYNGYL TSSSKTPEEY FVETTSLAGS YRDWSYSGQR TELGVEFLKR
1510 1520 1530 1540 1550
GDKIVYHTTG SPIEFHLDGE VLPLDKLKSL LSLREVKTIK VFTTVDNTNL
1560 1570 1580 1590 1600
HTHIVDMSMT YGQQFGPTYL DGADVTKIKP HVNHEGKTFF VLPSDDTLRS
1610 1620 1630 1640 1650
EAFEYYHTID ESFLGRYMSA LNHTKKWKFP QVGGLTSIKW ADNNCYLSSV
1660 1670 1680 1690 1700
LLALQQVEVK FNAPALQEAY YRARAGDAAN FCALILAYSN KTVGELGDVR
1710 1720 1730 1740 1750
ETMTHLLQHA NLESAKRVLN VVCKHCGQKT TTLKGVEAVM YMGTLSYDEL
1760 1770 1780 1790 1800
KTGVSIPCVC GRNATQYLVQ QESSFVMMSA PPAEYKLQQG AFLCANEYTG
1810 1820 1830 1840 1850
NYQCGHYTHI TAKETLYRVD GAHLTKMSEY KGPVTDVFYK ETSYTTAIKP
1860 1870 1880 1890 1900
VSYKLDGVTY TEIEPKLDGY YKKGNAYYTE QPIDLVPTQP MPNASFDNFK
1910 1920 1930 1940 1950
LTCSNTKFAD DLNQMTGFKK PASRELTVTF FPDLNGDVVA IDYRHYSTSF
1960 1970 1980 1990 2000
KKGAKLVHKP ILWHINQTTN KTTYKPNIWC LRCLWSTKPV DTSNSFEVLV
2010 2020 2030 2040 2050
VEDTQGMDNL ACESQTTTSE EVVENPTVQK EIIECDVKTT EVVGNVILKP
2060 2070 2080 2090 2100
SEEGVKVTQE LGHEDLMAAY VEETSITIKK PNELSLALGL KTLATHGAAA
2110 2120 2130 2140 2150
INSVPWSKIL AYVKPFLGQT AVITSNCIKK CVQRVFSNYM PYVITLLFQL
2160 2170 2180 2190 2200
CTFTKSTNSR IKASLPTTIA KNSVKSVAKL CLDVCINYVK SPKFSKLFTI
2210 2220 2230 2240 2250
VMWLLLLSIC LGSLTYVTAV LGVCLSSLGV PSYCDGVREL YINSSNVTTM
2260 2270 2280 2290 2300
DFCQGYFPCS VCLSGLDSLD SYPALETIQV TISSYKLDLT FLGLAAEWLL
2310 2320 2330 2340 2350
AYMLFTKFFY LLGLSAIMQA FFGYFASHFI SNSWLMWFII SIVQMAPVSA
2360 2370 2380 2390 2400
MVRMYIFFAS FYYVWKSYVH IMDGCTSSTC MMCYKRNRAT RVECTTIVNG
2410 2420 2430 2440 2450
VKRSFYVYAN GGRGFCKAHN WNCLNCDTFC AGSTFISDEV ARDLSLQFKR
2460 2470 2480 2490 2500
PINPTDQSAY VVDSVTVKNG ALHLYFDKAG QKTYERHPLS HFVNLDNLRA
2510 2520 2530 2540 2550
NNTKGSLPIN VIVFDGKSKC EESAAKSASV YYSQLMCQPI LLLDQALVSD
2560 2570 2580 2590 2600
VGDSTEVSVK MFDAYVDTFS ATFSVPMEKL KALVATAHSE LAKGVALDGV
2610 2620 2630 2640 2650
LSTFVSAARQ GVVDTDVDTK DVIECLKLSH HSDIEVTGDS CNNFMLTYNK
2660 2670 2680 2690 2700
VENMTPRDLG ACIDCNARHI NAQVAKSHNV SLVWNVKDYM SLSEQLRKQI
2710 2720 2730 2740 2750
RSAAKKNNIP FRLTCATTRQ VVNVITTKIS LKGGKVVSTW FKLLLKVTLL
2760 2770 2780 2790 2800
CVLAALFCYV IMPVHSLSVH DGYTNEIIGY KAIQDGVTRD IVSTDDCFAN
2810 2820 2830 2840 2850
KHAGFDSWFS QRGGSYRNDK NCPVVAAIIT REIGFIVPGL PGTVLRALNG
2860 2870 2880 2890 2900
DFLHFLPRVF SAVGNICYTP SKLIEYSDFA TSACVLAAEC TIFKDAMGKP
2910 2920 2930 2940 2950
VPYCYDTNLL EGSISYSELR PDTRYVLMDG SIIQFPNTYL EGSVRVVTTF
2960 2970 2980 2990 3000
DAEYCRHGTC ERSEVGVCLS TSGRWVLNNE HYRALPGVFC GVDAMNLIAN
3010 3020 3030 3040 3050
IFTPLVQPVG ALDVSASVVA GGIIAILVTC AAYYFMKFRR AFGEYNHVVA
3060 3070 3080 3090 3100
ANALLFLMSF TILCLAPAYS FLPGVYSIFY LYLTFYFTND VSFLAHLQWF
3110 3120 3130 3140 3150
AMFSPIVPFW ITAIYVFCIS LKHFHWFFSN YLKKRVMFNG VTFSTFEEAA
3160 3170 3180 3190 3200
LCTFLLNKEM YLRLRSETLL PLTQYNRYLA LYNKYKYFSG ALDTTSYREA
3210 3220 3230 3240 3250
ACCHLAKALN DFSNSGADVL YQPPQTSITS AVLQSGFRKM AFPSGKVEGC
3260 3270 3280 3290 3300
MVQVTCGTTT LNGLWLDDTV YCPRHVVCTA EDMLNPNYDD LLIRKSNHSF
3310 3320 3330 3340 3350
LVQAGNVQLR VIGHSMQNCL LRLKVDTSNP KTPKYKFVRI QPGQTFSVLA
3360 3370 3380 3390 3400
CYNGSPSGVY QCAMRPNHTI KGSFLNGSCG SVGFNIDYDC VSFCYMHHME
3410 3420 3430 3440 3450
LPTGVHAGTD LEGKFYGPFV DRQTAQAAGT DTTITLNVLA WLYAAVINGD
3460 3470 3480 3490 3500
RWFLNRFTTT LNDFNLVAMK YNYEPLTQDH VDILGPLSAQ TGIAVLDMCA
3510 3520 3530 3540 3550
ALKELLQNGM NGRTILGSTI LEDEFTPFDV VRQCSGVTFQ GKFKKIVKGT
3560 3570 3580 3590 3600
HHWMLLTFLT SLLILVQSTQ WSLFFFVYEN AFLPFALGIM AVAACAMLLV
3610 3620 3630 3640 3650
KHKHAFLCLF LLPSLATVAY FNMVYMPASW VMRIMTWLEL ADTSLSGYRL
3660 3670 3680 3690 3700
KDCVMYASAL VLLILMTART VYDDAARRVW TLMNVITLVY KVYYGNSLDQ
3710 3720 3730 3740 3750
AISMWALVIS VTSNYSGVVT TIMFLARAIV FVCVEYYPLL FITGNTLQCI
3760 3770 3780 3790 3800
MLVYCFLGYC CCCYFGLFCL LNRYFRLTLG VYDYLVSTQE FRYMNSQGLL
3810 3820 3830 3840 3850
PPKSSIDAFK LNIKLLGIGG KPCIKVATVQ SKMSDVKCTS VVLLSVLQQL
3860 3870 3880 3890 3900
RVESSSKLWA QCVQLHNDIL LAKDTTEAFE KMVSLLSVLL SMQGAVDINK
3910 3920 3930 3940 3950
LCEEMLDNRA TLQAIASEFS SLPSYAAYAT AQEAYEQAVS NGDSEVVLKK
3960 3970 3980 3990 4000
LKKSLNVAKS EFDHDAAMQR KLEKMADQAM TQMYKQARSE DKRAKVTSAM
4010 4020 4030 4040 4050
QTMLFTMLRK LDNDALNNII NNARDGCVPL NIIPLTTAAK LMVVVPDYGT
4060 4070 4080 4090 4100
YKNTCDGNTF TYASALWEIQ QVVDADSKIV QLSEINMDNS PNLAWPLIVT
4110 4120 4130 4140 4150
ALRANSAVKL QNNELSPVAL RQMSCAAGTT QTACTDDNAL AYYNNAKGGR
4160 4170 4180 4190 4200
FVLALLSDHQ DLKWARFPKS DGTGTIYTEL EPPCRFVTDT PKGPKVKYLY
4210 4220 4230 4240 4250
FIKGLNNLNR GMVLGSLAAT VRLQAGNATE VPANSTVLSF CAFAVDPAKA
4260 4270 4280 4290 4300
YKDYLASGGQ PITNCVKMLC THTGTGQAIT VTPEANMDQE SFGGASCCLY
4310 4320 4330 4340 4350
CRCHIDHPNP KGFCDLKGKY VQIPTTCAND PVGFTLRNTV CTVCGMWKGY
4360 4370
GCSCDQLREP MMQSADASTF LNGFAV
Note: Produced by conventional translation.
Length:4,376
Mass (Da):485,585
Last modified:June 10, 2008 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i338874921B682E15
GO
Isoform Replicase polyprotein 1ab (identifier: P0C6W2-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab
The sequence of this isoform can be found in the external entry P0C6W2.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:7,067
Mass (Da):789,496
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

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DDBJi
Links Updated
DQ022305 Genomic RNA No translation available.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ022305 Genomic RNA No translation available.

3D structure databases

SMRiP0C6F8
ModBaseiSearch...

Proteomic databases

PRIDEiP0C6F8

Family and domain databases

Gene3Di1.10.150.420, 1 hit
1.10.1840.10, 1 hit
1.10.8.1190, 1 hit
1.10.8.370, 1 hit
2.30.30.590, 1 hit
2.40.10.10, 2 hits
2.40.10.250, 1 hit
2.40.10.290, 1 hit
3.10.20.350, 1 hit
3.10.20.540, 1 hit
3.40.220.10, 1 hit
3.40.220.20, 1 hit
3.40.220.30, 1 hit
3.40.50.11020, 1 hit
3.90.70.90, 1 hit
InterProiView protein in InterPro
IPR022733, DPUP_SUD_C_bCoV
IPR002589, Macro_dom
IPR043472, Macro_dom-like
IPR042570, NAR_sf
IPR036333, NSP10_sf_CoV
IPR021590, NSP1_bCoV
IPR038030, NSP1_sf_bCoV
IPR024375, NSP3_bCoV
IPR024358, NSP3_N_bCoV
IPR032592, NSP3_NAR_bCoV
IPR038166, NSP3_PL2pro_sf_CoV
IPR038400, NSP3_SUD-M_sf_bCoV
IPR043478, NSP3_SUD-N_bCoV
IPR038083, NSP3A-like
IPR032505, NSP4_C_CoV
IPR038123, NSP4_C_sf_CoV
IPR014828, NSP7_CoV
IPR037204, NSP7_sf_CoV
IPR014829, NSP8_CoV-like
IPR037230, NSP8_sf_CoV
IPR014822, NSP9_CoV
IPR036499, NSP9_sf_CoV
IPR013016, Peptidase_C16_CoV
IPR008740, Peptidase_C30_CoV
IPR043477, Peptidase_C30_dom3_CoV
IPR009003, Peptidase_S1_PA
IPR043504, Peptidase_S1_PA_chymotrypsin
IPR043177, PLpro_N_sf_CoV
IPR043503, PLpro_palm_finger_dom_CoV
IPR043178, PLpro_thumb_sf_CoV
IPR018995, RNA_synth_NSP10_CoV
PfamiView protein in Pfam
PF16348, Corona_NSP4_C, 1 hit
PF12379, DUF3655, 1 hit
PF01661, Macro, 1 hit
PF16251, NAR, 1 hit
PF11501, Nsp1, 1 hit
PF09401, NSP10, 1 hit
PF12124, Nsp3_PL2pro, 1 hit
PF08716, nsp7, 1 hit
PF08717, nsp8, 1 hit
PF08710, nsp9, 1 hit
PF05409, Peptidase_C30, 1 hit
PF11633, SUD-M, 1 hit
PF08715, Viral_protease, 1 hit
SMARTiView protein in SMART
SM00506, A1pp, 1 hit
SUPFAMiSSF101816, SSF101816, 1 hit
SSF140367, SSF140367, 1 hit
SSF143076, SSF143076, 1 hit
SSF144246, SSF144246, 1 hit
SSF159936, SSF159936, 1 hit
SSF160099, SSF160099, 1 hit
SSF50494, SSF50494, 1 hit
SSF52949, SSF52949, 1 hit
PROSITEiView protein in PROSITE
PS51442, M_PRO, 1 hit
PS51154, MACRO, 1 hit
PS51124, PEPTIDASE_C16, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

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ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

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MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiR1A_BCHK3
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P0C6F8
Secondary accession number(s): Q3LZX2
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: August 12, 2020
This is version 73 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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