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Entry version 78 (11 Dec 2019)
Sequence version 1 (10 Jun 2008)
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Protein

Replicase polyprotein 1a

Gene

1a

Organism
Murine coronavirus (strain JHM) (MHV-JHM) (Murine hepatitis virus)
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>
-Experimental evidence at protein leveli <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 1 (PL1-PRO) and papain-like proteinase 2 (PL2-PRO) are responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PLP2 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
The main proteinase 3CL-PRO is 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

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">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_section">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 sitei1120For PL1-PRO activityPROSITE-ProRule annotation1
Active sitei1271For PL1-PRO activityPROSITE-ProRule annotation1
Active sitei1715For PL2-PRO activityPROSITE-ProRule annotation1
Active sitei1872For PL2-PRO activityPROSITE-ProRule annotation1
Active sitei3377For 3CL-PRO activityPROSITE-ProRule annotation1
Active sitei3481For 3CL-PRO activityPROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">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 fingeri1197 – 1225C4-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri1793 – 1829C4-type 2PROSITE-ProRule annotationAdd BLAST37
Zinc fingeri4397 – 4413By similarityAdd BLAST17
Zinc fingeri4439 – 4452By 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

Enzyme and pathway databases

BRENDA Comprehensive Enzyme Information System

More...
BRENDAi
3.4.22.B14 3467

<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_and_taxonomy_section">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):
p28
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p65
Non-structural protein 3 (EC:3.4.19.12, EC:3.4.22.69)
Short name:
nsp3
Alternative name(s):
PL1-PRO/PL2-PRO
PL1/PL2
Papain-like proteinases 1/2
p210
Non-structural protein 4
Short name:
nsp4
Alternative name(s):
Peptide HD2
p44
3C-like proteinase (EC:3.4.22.-)
Short name:
3CL-PRO
Short name:
3CLp
Alternative name(s):
M-PRO
nsp5
p27
Non-structural protein 6
Short name:
nsp6
Non-structural protein 7
Short name:
nsp7
Alternative name(s):
p10
Non-structural protein 8
Short name:
nsp8
Alternative name(s):
p22
Non-structural protein 9
Short name:
nsp9
Alternative name(s):
p12
Non-structural protein 10
Short name:
nsp10
Alternative name(s):
Growth factor-like peptide
Short name:
GFL
p15
Non-structural protein 11
Short name:
nsp11
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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_and_taxonomy_section">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>OrganismiMurine coronavirus (strain JHM) (MHV-JHM) (Murine hepatitis virus)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 identifieri11144 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 lineageiVirusesRiboviriaNidoviralesCornidovirineaeCoronaviridaeOrthocoronavirinaeBetacoronavirusEmbecovirus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 hostiMus musculus (Mouse) [TaxID: 10090]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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
  • UP000007193 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">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_location_section">'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>Transmembranei2289 – 2309HelicalSequence analysisAdd BLAST21
Transmembranei2320 – 2340HelicalSequence analysisAdd BLAST21
Transmembranei2403 – 2423HelicalSequence analysisAdd BLAST21
Transmembranei2445 – 2465HelicalSequence analysisAdd BLAST21
Transmembranei2846 – 2866HelicalSequence analysisAdd BLAST21
Transmembranei3099 – 3119HelicalSequence analysisAdd BLAST21
Transmembranei3121 – 3141HelicalSequence analysisAdd BLAST21
Transmembranei3153 – 3173HelicalSequence analysisAdd BLAST21
Transmembranei3180 – 3200HelicalSequence analysisAdd BLAST21
Transmembranei3205 – 3225HelicalSequence analysisAdd BLAST21
Transmembranei3648 – 3668HelicalSequence analysisAdd BLAST21
Transmembranei3678 – 3698HelicalSequence analysisAdd BLAST21
Transmembranei3705 – 3725HelicalSequence analysisAdd BLAST21
Transmembranei3748 – 3768HelicalSequence analysisAdd BLAST21
Transmembranei3775 – 3795HelicalSequence analysisAdd BLAST21
Transmembranei3802 – 3822HelicalSequence analysisAdd BLAST21
Transmembranei3846 – 3866HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

Keywords - Cellular componenti

Host cytoplasm, Host membrane, Membrane

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology_and_biotech_section">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi2835F → A: No processing between p210 and peptide HD2. 1 Publication1
Mutagenesisi2836S → A: No effect. 1 Publication1
Mutagenesisi2837L → A: No effect. 1 Publication1
Mutagenesisi2838K → A: No effect. 1 Publication1
Mutagenesisi2838K → N: No effect. 1 Publication1
Mutagenesisi2839G → A: Partial processing between p210 and peptide HD2. 1 Publication1
Mutagenesisi2839G → N: No processing between p210 and peptide HD2. 1 Publication1
Mutagenesisi2839G → V: No processing between p210 and peptide HD2. 1 Publication1
Mutagenesisi2840G → A: No processing between p210 and peptide HD2. 1 Publication1
Mutagenesisi2840G → N: No processing between p210 and peptide HD2. 1 Publication1
Mutagenesisi2840G → V: No processing between p210 and peptide HD2. 1 Publication1
Mutagenesisi2841A → N: No effect. 1 Publication1
Mutagenesisi2842V → N or M: No effect. 1 Publication1
Mutagenesisi2846V → M: No effect. 1 Publication1

<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.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00003382901 – 4474Replicase polyprotein 1aAdd BLAST4474
ChainiPRO_00003382911 – 247Non-structural protein 1CuratedAdd BLAST247
ChainiPRO_0000338292248 – 832Non-structural protein 2CuratedAdd BLAST585
ChainiPRO_0000338293833 – 2840Non-structural protein 3CuratedAdd BLAST2008
ChainiPRO_00003382942841 – 3336Non-structural protein 4CuratedAdd BLAST496
ChainiPRO_00003382953337 – 36393C-like proteinaseCuratedAdd BLAST303
ChainiPRO_00003382963640 – 3927Non-structural protein 6CuratedAdd BLAST288
ChainiPRO_00003382973928 – 4019Non-structural protein 7CuratedAdd BLAST92
ChainiPRO_00003382984020 – 4213Non-structural protein 8Add BLAST194
ChainiPRO_00003382994214 – 4323Non-structural protein 9CuratedAdd BLAST110
ChainiPRO_00003383014323 – 4474Non-structural protein 11Sequence analysisAdd BLAST152
ChainiPRO_00003383004324 – 4460Non-structural protein 10CuratedAdd BLAST137

<p>This subsection of the <a href="http://www.uniprot.org/help/ptm_processing_section">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>Sitei247 – 248Cleavage; by PL1-PROCurated2
Sitei832 – 833Cleavage; by PL1-PROCurated2
Sitei2840 – 2841Cleavage; by PL2-PROCurated2
Sitei3336 – 3337Cleavage; by 3CL-PROCurated2
Sitei3639 – 3640Cleavage; by 3CL-PROCurated2
Sitei3927 – 3928Cleavage; by 3CL-PROCurated2
Sitei4019 – 4020Cleavage; by 3CL-PROCurated2
Sitei4213 – 4214Cleavage; by 3CL-PROCurated2
Sitei4323 – 4324Cleavage; by 3CL-PROCurated2
Sitei4460 – 4461Cleavage; by 3CL-PROCurated2

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
P0C6V1

<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_section">'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_section">'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
P0C6V1

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_and_domains_section">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>Domaini1083 – 1320Peptidase C16 1PROSITE-ProRule annotationAdd BLAST238
Domaini1321 – 1481MacroPROSITE-ProRule annotationAdd BLAST161
Domaini1677 – 1936Peptidase C16 2PROSITE-ProRule annotationAdd BLAST260
Domaini3337 – 3639Peptidase C30PROSITE-ProRule annotationAdd BLAST303

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>Regioni2228 – 2465HD1Add BLAST238
Regioni2846 – 3225HD2Add BLAST380
Regioni3648 – 3866HD3Add BLAST219

<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.

<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 fingeri1197 – 1225C4-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri1793 – 1829C4-type 2PROSITE-ProRule annotationAdd BLAST37
Zinc fingeri4397 – 4413By similarityAdd BLAST17
Zinc fingeri4439 – 4452By 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
1.10.8.370, 1 hit
2.40.10.250, 1 hit
2.40.10.290, 1 hit
3.10.20.350, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR022570 B-CoV_NSP1
IPR032505 Corona_NSP4_C
IPR002589 Macro_dom
IPR032592 NAR_dom
IPR036333 NSP10_sf
IPR038123 NSP4_C_sf
IPR014828 NSP7
IPR037204 NSP7_sf
IPR014829 NSP8
IPR037230 NSP8_sf
IPR014822 NSP9
IPR036499 NSP9_sf
IPR002705 Pept_C30/C16_B_coronavir
IPR008740 Peptidase_C30
IPR013016 Peptidase_C30/C16
IPR009003 Peptidase_S1_PA
IPR038083 R1a/1ab
IPR018995 RNA_synth_NSP10_coronavirus
IPR029063 SAM-dependent_MTases
IPR014827 Viral_protease

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF16348 Corona_NSP4_C, 1 hit
PF11963 DUF3477, 2 hits
PF01661 Macro, 1 hit
PF16251 NAR, 1 hit
PF09401 NSP10, 1 hit
PF08716 nsp7, 1 hit
PF08717 nsp8, 1 hit
PF08710 nsp9, 1 hit
PF01831 Peptidase_C16, 1 hit
PF05409 Peptidase_C30, 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
SSF50494 SSF50494, 1 hit
SSF53335 SSF53335, 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, 2 hits

<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_length">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_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by ribosomal frameshifting. AlignAdd to basket
Isoform Replicase polyprotein 1a (identifier: P0C6V1-1) [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
MAKMGKYGLG FKWAPEFPWM LPNASEKLGN PERSEEDGFC PSAAQEPKVK
60 70 80 90 100
GKTLVNHVRV DCSRLPALEC CVQSAIIRDI FVDEDPQKVE ASTMMALQFG
110 120 130 140 150
SAVLVKPSKR LSVQAWAKLG VLPKTPAMGL FKRFCLCNTR ECVCDAHVAF
160 170 180 190 200
QLFTVQPDGV CLGNGRFIGW FVPVTAIPEY AKQWLQPWSI LLRKGGNKGS
210 220 230 240 250
VTSGHFRRAV TMPVYDFNVE DACEEVHLNP RGKYSCKAYA LLRGYRGVKP
260 270 280 290 300
ILFVDQYGCD YTGCLAKGLE DYGDLTLSEM KELSPVWRDS LDNEVVVAWH
310 320 330 340 350
VDRDPRAVMR LQTLATVRSI EYVGQPIEDM VDGDVVMREP AHLLAPNAIV
360 370 380 390 400
KRLPRLVETM LYTDSSVTEF CYKTKLCDCG FITQFGYVDC CGDTCGFRGW
410 420 430 440 450
VPGNMMDGFP CPGCCKSYMP WELEAQSSGV IPEGGVLFTQ STDTVNRESF
460 470 480 490 500
KLYGHAVVPF GGAAYWSPYP GMWLPVIWSS VKSYSYLTYT GVVGCKAIVQ
510 520 530 540 550
ETDAICRFLY MDYVQHKCGN LEQRAILGLD DVYHRQLLVN RGDYSLLLEN
560 570 580 590 600
VDLFVKRRAE FACKFATCGD GLVPLLLDGL VPRSYYLIKS GQAFTSLMVN
610 620 630 640 650
FSREVVDMCM DMALLFMHDV KVATKYVKKV TGKVAVRFKA LGIAVVRKIT
660 670 680 690 700
EWFDLAVDTA ASAAGWLCYQ LVNGLFAVAN GVITFIQEVP ELVKNFVDKF
710 720 730 740 750
KTFFKVLIDS MSVSILSGLT VVKTASNRVC LAGSKVYEVV QKSLPAYIMP
760 770 780 790 800
VGCSEATCLV GEIEPAVFED DVVDVVKAPL TYQGCCKPPS SFEKICIVDK
810 820 830 840 850
LYMAKCGDQF YPVVVDNDTV GVLDQCWRFP CAGKKVVFND KPKVKEVPST
860 870 880 890 900
RKIKIIFALD ATFDSVLSKA CSEFEVDKDV TLDELLDVVL DAVESTLSPC
910 920 930 940 950
KEHGVIGTKV CALLERLVDD YVYLFDEGGE EVIASRMYCS FSAPDEDCVA
960 970 980 990 1000
TDVVYADENQ DDDADDPVVL VADTQEEDGV AREQVDSADS EICVAHTGGQ
1010 1020 1030 1040 1050
EMTEPDVVGS QTPIASAEET EVGEACDREG IAEVKATVCA DALDACPDQV
1060 1070 1080 1090 1100
EAFDIEKVED SILSELQTEL NAPADKTYED VLAFDAIYSE TLSAFYAVPS
1110 1120 1130 1140 1150
DETHFKVCGF YSPAIERTNC WLRSTLIVMQ SLPLEFKDLG MQKLWLSYKA
1160 1170 1180 1190 1200
GYDQCFVDKL VKSAPKSIIL PQGGYVADFA YFFLSQCSFK VHANWRCLKC
1210 1220 1230 1240 1250
GMELKLQGLD AVFFYGDVVS HMCKCGNSMT LLSADIPYTF DFGVRDDKFC
1260 1270 1280 1290 1300
AFYTPRKVFR AACAVDVNDC HSMAVVDGKQ IDGKVVTKFN GDKFDFMVGH
1310 1320 1330 1340 1350
GMTFSMSPFE IAQLYGSCIT PNVCFVKGDV IKVLRRVGAE VIVNPANGRM
1360 1370 1380 1390 1400
AHGAGVAGAI AKAAGKAFIN ETADMVKAQG VCQVGGCYES TGGKLCKKVL
1410 1420 1430 1440 1450
NIVGPDARGH GNECYSLLER AYQHINKCDN VVTTLISAGI FSVPTDVSLT
1460 1470 1480 1490 1500
YLLGVVTKNV ILVSNNQDDF DVIEKCQVTS VAGTKALSFQ LAKNLCRDVK
1510 1520 1530 1540 1550
FVTNACSSLF SESSFVSSYD VLQEVEALRH DIQLDDDARV FVQANMDCLP
1560 1570 1580 1590 1600
TDWRLVNKFD SVDGVRTIKY FECPGEVFVS SQGKKFGYVQ NGSFKEASVS
1610 1620 1630 1640 1650
QIRALLANKV DVLCTVDGVN FRSCCVAEGE VFGKTLGSVF CDGINVTKVR
1660 1670 1680 1690 1700
CSAIHKGKVF FQYSGLSAAD LAAVKDAFGF DEPQLLQYYS MLGMCKWPVV
1710 1720 1730 1740 1750
VCGNYFAFKQ SNNNCYINVA CLMLQHLSLK FPKWQWRRPG NEFRSGKPLR
1760 1770 1780 1790 1800
FVSLVLAKGS FKFNEPSDST DFIRVELREA DLSGATCDLE FICKCGVKQE
1810 1820 1830 1840 1850
QRKGVDAVMH FGTLDKSGLV KGYNIACTCG DKLVHCTQFN VPFLICSNTP
1860 1870 1880 1890 1900
EGKKLPDDVV AANIFTGGSV GHYTHVKCKP KYQLYDACNV SKVSEAKGNF
1910 1920 1930 1940 1950
TDCLYLKNLK QTFSSVLTTY YLDDVKCVAY KPDLSQYYCE SGKYYTKPII
1960 1970 1980 1990 2000
KAQFRTFEKV EGVYTNFKLV GHDIAEKLNA KLGFDCNSPF MEYKITEWPT
2010 2020 2030 2040 2050
ATGDVVLASD DLYVSRYSGG CVTFGKPVIW RGHEEASLKS LTYFNRPSVV
2060 2070 2080 2090 2100
CENKFNVLPV DVSEPTDRRP VPSAVLVTGA ASGADASAIS TEPGTAKEQK
2110 2120 2130 2140 2150
ACASDSVEDQ IVMEAQKKSS VTTVAVKEVK LNGVKKPVKW NCSVVVNDPT
2160 2170 2180 2190 2200
SETKVVKSLS IVDVYDMFLT GCRYVVWTAN ELSRLINSPT VREYVKWGMS
2210 2220 2230 2240 2250
KLIIPANLLL LRDEKQEFVA PKVVKAKAIA CYGAVKWFLL YCFSWIKFNT
2260 2270 2280 2290 2300
DNKVIYTTEV ASKLTFKLCC LAFKNALQTF NWSVVSRGFF LVATVFLLWF
2310 2320 2330 2340 2350
NFLYANVILS DFYLPNIGPL PMFVGQIVAW VKTTFGVLTI CDFYQVTDLG
2360 2370 2380 2390 2400
YRSSFCNGSM VCELCFSGFD MLDNYESINV VQHVVDRRVS FDYISLFKLV
2410 2420 2430 2440 2450
VELVIGYSLY TVCFYPLFVL VGMQLLTTWL PEFFMLGTMH WSARLFVFVA
2460 2470 2480 2490 2500
NMLPAFTLLR FYIVVTAMYK VYCLCRHVMY GCSKPGCLFC YKRNRSVRVK
2510 2520 2530 2540 2550
CSTVVGGSLR YYDVMANGGT GFCTKHQWNC LNCNSWKPGN TFITHEAAAD
2560 2570 2580 2590 2600
LSKELKRPVN PTDSAYYSVI EVKQVGCSMR LFYERDGQRV YDDVSASLFV
2610 2620 2630 2640 2650
DMNGLLHSKV KGVPETHVVV VENEADKAGF LNAAVFYAQS LYRPMLMVEK
2660 2670 2680 2690 2700
KLITTANTGL SVSRTMFDLY VYSLLRHLDV DRKSLTSFVN AAHNSLKEGV
2710 2720 2730 2740 2750
QLEQVMDTFV GCARRKCAID SDVETKSITK SVMAAVNAGV EVTDESCNNL
2760 2770 2780 2790 2800
VPTYVKSDTI VAADLGVLIQ NNAKHVQSNV AKAANVACIW SVDAFNQLSA
2810 2820 2830 2840 2850
DLQHRLRKAC VKTGLKIKLT YNKQEANVPI LTTPFSLKGG AVFSRVLQWL
2860 2870 2880 2890 2900
FVANLICFIV LWALMPTYAV HKSDMQLPLY ASFKVIDNGV LRDVSVTDAC
2910 2920 2930 2940 2950
FANKFNQFDQ WYESTFGLVY YRNSKACPVV VAVIDQDIGH TLFNVPTKVL
2960 2970 2980 2990 3000
RYGFHVLHFI THAFATDRVQ CYTPHMQIPY DNFYASGCVL SSLCTMLAHA
3010 3020 3030 3040 3050
DGTPHPYCYT EGVMHNASLY SSLVPHVRYN LASSNGYIRF PEVVSEGIVR
3060 3070 3080 3090 3100
VVRTRSMTYC RVGLCEEAEE GICFNFNSSW VLNNPYYRAM PGTFCGRNAF
3110 3120 3130 3140 3150
DLIHQVLGGL VQPIDFFALT ASSVAGAILA IIVVLAFYYL IKLKRAFGDY
3160 3170 3180 3190 3200
TSVVVINVIV WCINFLMLFV FQVYPTLSCL YACFYFYTTL YFPSEISVVM
3210 3220 3230 3240 3250
HLQWLVMYGA IMPLWFCITY VAVVVSNHAL WLFSYCRKIG TDVRSDGTFE
3260 3270 3280 3290 3300
EMALTTFMIT KESYCKLKNS VSDVAFNRYL SLYNKYRYFS GKMDTATYRE
3310 3320 3330 3340 3350
AACSQLAKAM ETFNHNNGND VLYQPPTASV TTSFLQSGIV KMVSPTSKVE
3360 3370 3380 3390 3400
PCVVSVTYGN MTLNGLWLDD KVYCPRHVIC SSADMTDPDY PNLLCRVTSS
3410 3420 3430 3440 3450
DFCVMSDRMS LTVMSYQMQG SLLVLTVTLQ NPNTPKYSFG VVKPGETFTV
3460 3470 3480 3490 3500
LAAYNGRPQG AFHVVMRSSH TIKGSFLCGS CGSVGYVLTG DSVRFVYMHQ
3510 3520 3530 3540 3550
LELSTGCHTG TDFSGNFYGP YRDAQVVQLP VQDYTQTVNV VAWLYAAILN
3560 3570 3580 3590 3600
RCNWFVQSDS CSLEEFNVWA MTNGFSSIKA DLVLDALASM TGVTVEQVLA
3610 3620 3630 3640 3650
AIKRLHSGFQ GKQILGSCVL EDELTPSDVY QQLAGVKLQS KRTRVIKGTC
3660 3670 3680 3690 3700
CWILASTFLF CSIISAFVKW TMFMYVTTHM LGVTLCALCF VIFAMLLIKH
3710 3720 3730 3740 3750
KHLYLTMYIM PVLCTLFYTN YLVVGYKQSF RGLAYAWLSY FVPAVDYTYM
3760 3770 3780 3790 3800
DEVLYGVVLL VAMVFVTMRS INHDVFSTMF LVGRLVSLVS MWYFGANLEE
3810 3820 3830 3840 3850
EVLLFLTSLF GTYTWTTMLS LATAKVIAKW LAVNVLYFTD IPQIKLVLLS
3860 3870 3880 3890 3900
YLCIGYVCCC YWGVLSLLNS IFRMPLGVYN YKISVQELRY MNANGLRPPR
3910 3920 3930 3940 3950
NSFEALMLNF KLLGIGGVPV IEVSQIQSRL TDVKCANVVL LNCLQHLHIA
3960 3970 3980 3990 4000
SNSKLWQYCS TLHNEILATS DLSVAFDKLA QLLVVLFANP AAVDSKCLAS
4010 4020 4030 4040 4050
IEEVSDDYVR DNTVLQALQS EFVNMASFVE YELAKKNLDE AKASGSANQQ
4060 4070 4080 4090 4100
QIKQLEKACN IAKSAYERDR AVARKLERMA DLALTNMYKE ARINDKKSKV
4110 4120 4130 4140 4150
VSALQTMLFS MVRKLDNQAL NSILDNAVKG CVPLNAIPPL TSNTLTIIVP
4160 4170 4180 4190 4200
DKQVFDQVVD NVYVTYAPNV WHIQSIQDAD GAVKQLNEID VNSTWPLVIS
4210 4220 4230 4240 4250
ANRHNEVSTV VLQNNELMPQ KLRTQVVNSG SDMNCNIPTQ CYYNTTGTGK
4260 4270 4280 4290 4300
IVYAILSDCD GLKYTKIVKE DGNCVVLELD PPCKFSVQDV KGLKIKYLYF
4310 4320 4330 4340 4350
VKGCNTLARG WVVGTLSSTV RLQAGTATEY ASNSAILSLC AFSVDPKKTY
4360 4370 4380 4390 4400
LDYIQQGGVP VTNCVKMLCD HAGTGMAITI KPEATTNQDS YGGASVCIYC
4410 4420 4430 4440 4450
RSRVEHPDVD GLCKLRGKFV QVPLGIKDPV SYVLTHDVCQ VCGFWRDGSC
4460 4470
SCVGTGSQFQ SKDTNFLNGF GVQV
Note: Produced by conventional translation.
Length:4,474
Mass (Da):497,595
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:i7F09A6BF0E052D83
GO
Isoform Replicase polyprotein 1ab (identifier: P0C6Y0-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab
The sequence of this isoform can be found in the external entry P0C6Y0.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:7,180
Mass (Da):803,440
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

More...
DDBJi
Links Updated
M55148 Genomic RNA Translation: AAA46457.1
M18040 Genomic RNA Translation: AAA46466.1
S51684 Genomic RNA Translation: AAB19566.1

Protein sequence database of the Protein Information Resource

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PIRi
A36815 RRIHM2
B36815 VFIHJH

NCBI Reference Sequences

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RefSeqi
YP_209230.1, AC_000192.1 [P0C6V1-1]

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
M55148 Genomic RNA Translation: AAA46457.1
M18040 Genomic RNA Translation: AAA46466.1
S51684 Genomic RNA Translation: AAB19566.1
PIRiA36815 RRIHM2
B36815 VFIHJH
RefSeqiYP_209230.1, AC_000192.1 [P0C6V1-1]

3D structure databases

SMRiP0C6V1
ModBaseiSearch...

Proteomic databases

PRIDEiP0C6V1

Enzyme and pathway databases

BRENDAi3.4.22.B14 3467

Family and domain databases

Gene3Di1.10.150.420, 1 hit
1.10.8.370, 1 hit
2.40.10.250, 1 hit
2.40.10.290, 1 hit
3.10.20.350, 1 hit
InterProiView protein in InterPro
IPR022570 B-CoV_NSP1
IPR032505 Corona_NSP4_C
IPR002589 Macro_dom
IPR032592 NAR_dom
IPR036333 NSP10_sf
IPR038123 NSP4_C_sf
IPR014828 NSP7
IPR037204 NSP7_sf
IPR014829 NSP8
IPR037230 NSP8_sf
IPR014822 NSP9
IPR036499 NSP9_sf
IPR002705 Pept_C30/C16_B_coronavir
IPR008740 Peptidase_C30
IPR013016 Peptidase_C30/C16
IPR009003 Peptidase_S1_PA
IPR038083 R1a/1ab
IPR018995 RNA_synth_NSP10_coronavirus
IPR029063 SAM-dependent_MTases
IPR014827 Viral_protease
PfamiView protein in Pfam
PF16348 Corona_NSP4_C, 1 hit
PF11963 DUF3477, 2 hits
PF01661 Macro, 1 hit
PF16251 NAR, 1 hit
PF09401 NSP10, 1 hit
PF08716 nsp7, 1 hit
PF08717 nsp8, 1 hit
PF08710 nsp9, 1 hit
PF01831 Peptidase_C16, 1 hit
PF05409 Peptidase_C30, 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
SSF50494 SSF50494, 1 hit
SSF53335 SSF53335, 1 hit
PROSITEiView protein in PROSITE
PS51442 M_PRO, 1 hit
PS51154 MACRO, 1 hit
PS51124 PEPTIDASE_C16, 2 hits

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
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_CVMJH
<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: P0C6V1
Secondary accession number(s): P19751
<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_and_isoforms">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: December 11, 2019
This is version 78 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

Keywords - Technical termi

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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