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UniProtKB - P0C6V2 (R1A_CVPPU)

Entry version 81 (02 Dec 2020)
Sequence version 1 (10 Jun 2008)
Previous versions | rss
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Protein

Replicase polyprotein 1a

Gene

1a

Organism
Porcine transmissible gastroenteritis coronavirus (strain Purdue) (TGEV)
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 (PLP1) and papain-like proteinase 2 (PLP2) 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. PLP2 also antagonizes innate immune induction of type I interferon by blocking the 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-|-[SAGC]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK.
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

<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

  • 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 sitei1093For PL1-PRO activityPROSITE-ProRule annotation1
Active sitei1244For PL1-PRO activityPROSITE-ProRule annotation1
Active sitei1588For PL2-PRO activityPROSITE-ProRule annotation1
Active sitei1741For PL2-PRO activityPROSITE-ProRule annotation1
Active sitei2919For 3CL-PRO activityPROSITE-ProRule annotation1
Active sitei3022For 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 fingeri1164 – 1195C4-typePROSITE-ProRule annotationAdd BLAST32
Zinc fingeri3937 – 3953By similarityAdd BLAST17
Zinc fingeri3979 – 3992By 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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<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, Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host IRF3 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, 4985

<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):
p9
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p87
Non-structural protein 3 (EC:3.4.19.12, EC:3.4.22.-)
Short name:
nsp3
Alternative name(s):
PL1-PRO/PL2-PRO
PLP1/PLP2
Papain-like proteinases 1/2
p195
Non-structural protein 4
Short name:
nsp4
Alternative name(s):
Peptide HD2
3C-like proteinase (EC:3.4.22.-)
Short name:
3CL-PRO
Short name:
3CLp
Alternative name(s):
M-PRO
nsp5
p34
Non-structural protein 6
Short name:
nsp6
Non-structural protein 7
Short name:
nsp7
Alternative name(s):
p5
Non-structural protein 8
Short name:
nsp8
Alternative name(s):
p23
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
p14
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>OrganismiPorcine transmissible gastroenteritis coronavirus (strain Purdue) (TGEV)
<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 identifieri11151 [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 lineageiViruses › Riboviria › Orthornavirae › Pisuviricota › Pisoniviricetes › Nidovirales › Cornidovirineae › Coronaviridae › Orthocoronavirinae › Alphacoronavirus › Tegacovirus ›
<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 hostiSus scrofa (Pig) [TaxID: 9823]
<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
  • UP000001440 <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>Transmembranei1896 – 1916HelicalSequence analysisAdd BLAST21
Transmembranei1995 – 2015HelicalSequence analysisAdd BLAST21
Transmembranei2033 – 2053HelicalSequence analysisAdd BLAST21
Transmembranei2401 – 2421HelicalSequence analysisAdd BLAST21
Transmembranei2467 – 2487HelicalSequence analysisAdd BLAST21
Transmembranei2497 – 2517HelicalSequence analysisAdd BLAST21
Transmembranei2538 – 2558HelicalSequence analysisAdd BLAST21
Transmembranei2666 – 2686HelicalSequence analysisAdd BLAST21
Transmembranei2695 – 2715HelicalSequence analysisAdd BLAST21
Transmembranei2721 – 2741HelicalSequence analysisAdd BLAST21
Transmembranei2746 – 2766HelicalSequence analysisAdd BLAST21
Transmembranei3187 – 3207HelicalSequence analysisAdd BLAST21
Transmembranei3217 – 3237HelicalSequence analysisAdd BLAST21
Transmembranei3242 – 3262HelicalSequence analysisAdd BLAST21
Transmembranei3280 – 3300HelicalSequence analysisAdd BLAST21
Transmembranei3313 – 3333HelicalSequence analysisAdd BLAST21
Transmembranei3347 – 3367HelicalSequence analysisAdd BLAST21
Transmembranei3371 – 3391HelicalSequence analysisAdd BLAST21
Transmembranei3394 – 3414HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

Complete GO annotation on QuickGO ...

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_00003383021 – 4017Replicase polyprotein 1aAdd BLAST4017
ChainiPRO_00003383031 – 110Non-structural protein 1By similarityAdd BLAST110
ChainiPRO_0000338304111 – 879Non-structural protein 2By similarityAdd BLAST769
ChainiPRO_0000338305880 – 2388Non-structural protein 3By similarityAdd BLAST1509
ChainiPRO_00003383062389 – 2878Non-structural protein 4By similarityAdd BLAST490
ChainiPRO_00003383072879 – 31803C-like proteinaseAdd BLAST302
ChainiPRO_00003383083181 – 3474Non-structural protein 6By similarityAdd BLAST294
ChainiPRO_00003383093475 – 3557Non-structural protein 7By similarityAdd BLAST83
ChainiPRO_00003383103558 – 3752Non-structural protein 8By similarityAdd BLAST195
ChainiPRO_00003383113753 – 3863Non-structural protein 9Add BLAST111
ChainiPRO_00003383123864 – 3998Non-structural protein 10By similarityAdd BLAST135
ChainiPRO_00003383133999 – 4017Non-structural protein 11Sequence analysisAdd BLAST19

<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 is autocatalytically processed.1 Publication

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>Sitei110 – 111Cleavage; by PL1-PROBy similarity2
Sitei879 – 880Cleavage; by PL1-PROBy similarity2
Sitei2388 – 2389Cleavage; by PL2-PROBy similarity2
Sitei2878 – 2879Cleavage; by 3CL-PROBy similarity2
Sitei3180 – 3181Cleavage; by 3CL-PROBy similarity2
Sitei3474 – 3475Cleavage; by 3CL-PROBy similarity2
Sitei3557 – 3558Cleavage; by 3CL-PROBy similarity2
Sitei3752 – 3753Cleavage; by 3CL-PROBy similarity2
Sitei3863 – 3864Cleavage; by 3CL-PROBy similarity2
Sitei3998 – 3999Cleavage; by 3CL-PROBy similarity2

Proteomic databases

PRoteomics IDEntifications database

More...PRIDEi		P0C6V2

<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

Secondary structure

14017
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

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

More...SMRi		P0C6V2

Database of comparative protein structure models

More...ModBasei		Search...

Protein Data Bank in Europe - Knowledge Base

More...PDBe-KBi		Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...EvolutionaryTracei		P0C6V2

<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>Domaini1055 – 1299Peptidase C16 1PROSITE-ProRule annotationAdd BLAST245
Domaini1318 – 1489MacroPROSITE-ProRule annotationAdd BLAST172
Domaini1550 – 1803Peptidase C16 2PROSITE-ProRule annotationAdd BLAST254
Domaini2879 – 3180Peptidase C30PROSITE-ProRule annotationAdd BLAST302

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>Regioni1896 – 2053HD1Add BLAST158
Regioni2401 – 2766HD2Add BLAST366
Regioni3187 – 3414HD3Add BLAST228

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 biasi932 – 1042Glu-richAdd BLAST111

<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

Belongs to the coronaviruses polyprotein 1ab family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri1164 – 1195C4-typePROSITE-ProRule annotationAdd BLAST32
Zinc fingeri3937 – 3953By similarityAdd BLAST17
Zinc fingeri3979 – 3992By 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
1.10.8.370, 1 hit
2.30.30.1000, 1 hit
2.40.10.10, 2 hits
2.40.10.250, 1 hit
2.40.10.290, 1 hit
3.40.220.10, 1 hit
3.90.70.90, 2 hits

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR032039, A-CoV_nsp1
IPR038634, A-CoV_nsp1_sf
IPR043613, CoV_NSP2_C
IPR043615, CoV_NSP2_N
IPR043611, CoV_NSP3_C
IPR043612, CoV_NSP4_N
IPR043610, CoV_NSP6
IPR002589, Macro_dom
IPR043472, Macro_dom-like
IPR036333, NSP10_sf_CoV
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
IPR043503, PLpro_palm_finger_dom_CoV
IPR018995, RNA_synth_NSP10_CoV

Pfam protein domain database

More...Pfami		View protein in Pfam
PF16688, CNV-Replicase_N, 1 hit
PF09401, CoV_NSP10, 1 hit
PF19212, CoV_NSP2_C, 2 hits
PF19211, CoV_NSP2_N, 1 hit
PF19218, CoV_NSP3_C, 1 hit
PF16348, CoV_NSP4_C, 1 hit
PF19217, CoV_NSP4_N, 1 hit
PF19213, CoV_NSP6, 1 hit
PF08716, CoV_NSP7, 1 hit
PF08717, CoV_NSP8, 1 hit
PF08710, CoV_NSP9, 1 hit
PF08715, CoV_peptidase, 2 hits
PF01661, Macro, 1 hit
PF05409, Peptidase_C30, 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, 2 hits
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, 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%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: P0C6V2-1) [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
MSSKQFKILV NEDYQVNVPS LPIRDVLQEI KYCYRNGFEG YVFVPEYCRD 
        60         70         80         90        100
LVDCDRKDHY VIGVLGNGVS DLKPVLLTEP SVMLQGFIVR ANCNGVLEDF 
       110        120        130        140        150
DLKIARTGRG AIYVDQYMCG ADGKPVIEGD FKDYFGDEDI IEFEGEEYHC 
       160        170        180        190        200
AWTTVRDEKP LNQQTLFTIQ EIQYNLDIPH KLPNCATRHV APPVKKNSKI 
       210        220        230        240        250
VLSEDYKKLY DIFGSPFMGN GDCLSKCFDT LHFIAATLRC PCGSESSGVG 
       260        270        280        290        300
DWTGFKTACC GLSGKVKGVT LGDIKPGDAV VTSMSAGKGV KFFANCVLQY 
       310        320        330        340        350
AGDVEGVSIW KVIKTFTVDE TVCTPGFEGE LNDFIKPESK SLVACSVKRA 
       360        370        380        390        400
FITGDIDDAV HDCIITGKLD LSTNLFGNVG LLFKKTPWFV QKCGALFVDA 
       410        420        430        440        450
WKVVEELCGS LTLTYKQIYE VVASLCTSAF TIVNYKPTFV VPDNRVKDLV 
       460        470        480        490        500
DKCVKVLVKA FDVFTQIITI AGIEAKCFVL GAKYLLFNNA LVKLVSVKIL 
       510        520        530        540        550
GKKQKGLECA FFATSLVGAT VNVTPKRTET ATISLNKVDD VVAPGEGYIV 
       560        570        580        590        600
IVGDMAFYKS GEYYFMMSSP NFVLTNNVFK AVKVPSYDIV YDVDNDTKSK 
       610        620        630        640        650
MIAKLGSSFE YDGDIDAAIV KVNELLIEFR QQSLCFRAFK DDKSIFVEAY 
       660        670        680        690        700
FKKYKMPACL AKHIGLWNII KKDSCKRGFL NLFNHLNELE DIKETNIQAI 
       710        720        730        740        750
KNILCPDPLL DLDYGAIWYN CMPGCSDPSV LGSVQLLIGN GVKVVCDGCK 
       760        770        780        790        800
GFANQLSKGY NKLCNAARND IEIGGIPFST FKTPTNTFIE MTDAIYSVIE 
       810        820        830        840        850
QGKALSFRDA DVPVVDNGTI STADWSEPIL LEPAEYVKPK NNGNVIVIAG 
       860        870        880        890        900
YTFYKDEDEH FYPYGFGKIV QRMYNKMGGG DKTVSFSEEV DVQEIAPVTR 
       910        920        930        940        950
VKLEFEFDNE IVTGVLERAI GTRYKFTGTT WEEFEESISE ELDAIFDTLA 
       960        970        980        990       1000
NQGVELEGYF IYDTCGGFDI KNPDGIMISQ YDINITADEK SEVSASSEEE 
      1010       1020       1030       1040       1050
EVESVEEDPE NEIVEASEGA EGTSSQEEVE TVEVADITST EEDVDIVEVS 
      1060       1070       1080       1090       1100
AKDDPWAAAV DVQEAEQFNP SLPPFKTTNL NGKIILKQGD NNCWINACCY 
      1110       1120       1130       1140       1150
QLQAFDFFNN EAWEKFKKGD VMDFVNLCYA ATTLARGHSG DAEYLLELML 
      1160       1170       1180       1190       1200
NDYSTAKIVL AAKCGCGEKE IVLERAVFKL TPLKESFNYG VCGDCMQVNT 
      1210       1220       1230       1240       1250
CRFLSVEGSG VFVHDILSKQ TPEAMFVVKP VMHAVYTGTT QNGHYMVDDI 
      1260       1270       1280       1290       1300
EHGYCVDGMG IKPLKKRCYT STLFINANVM TRAEKPKQEF KVEKVEQQPI 
      1310       1320       1330       1340       1350
VEENKSSIEK EEIQSPKNDD LILPFYKAGK LSFYQGALDV LINFLEPDVI 
      1360       1370       1380       1390       1400
VNAANGDLKH MGGVARAIDV FTGGKLTERS KDYLKKNKSI APGNAVFFEN 
      1410       1420       1430       1440       1450
VIEHLSVLNA VGPRNGDSRV EAKLCNVYKA IAKCEGKILT PLISVGIFNV 
      1460       1470       1480       1490       1500
RLETSLQCLL KTVNDRGLNV FVYTDQERQT IENFFSCSIP VNVTEDNVNH 
      1510       1520       1530       1540       1550
ERVSVSFDKT YGEQLKGTVV IKDKDVTNQL PSAFDVGQKV IKAIDIDWQA 
      1560       1570       1580       1590       1600
HYGFRDAAAF SASSHDAYKF EVVTHSNFIV HKQTDNNCWI NAICLALQRL 
      1610       1620       1630       1640       1650
KPQWKFPGVR GLWNEFLERK TQGFVHMLYH ISGVKKGEPG DAELMLHKLG 
      1660       1670       1680       1690       1700
DLMDNDCEII VTHTTACDKC AKVEKFVGPV VAAPLAIHGT DETCVHGVSV 
      1710       1720       1730       1740       1750
NVKVTQIKGT VAITSLIGPI IGEVLEATGY ICYSGSNRNG HYTYYDNRNG 
      1760       1770       1780       1790       1800
LVVDAEKAYH FNRDLLQVTT AIASNFVVKK PQAEERPKNC AFNKVAASPK 
      1810       1820       1830       1840       1850
IVQEQKLLAI ESGANYALTE FGRYADMFFM AGDKILRLLL EVFKYLLVLF 
      1860       1870       1880       1890       1900
MCLRSTKMPK VKVKPPLAFK DFGAKVRTLN YMRQLNKPSV WRYAKLVLLL 
      1910       1920       1930       1940       1950
IAIYNFFYLF VSIPVVHKLT CNGAVQAYKN SSFIKSAVCG NSILCKACLA 
      1960       1970       1980       1990       2000
SYDELADFQH LQVTWDFKSD PLWNRLVQLS YFAFLAVFGN NYVRCFLMYF 
      2010       2020       2030       2040       2050
VSQYLNLWLS YFGYVEYSWF LHVVNFESIS AEFVIVVIVV KAVLALKHIV 
      2060       2070       2080       2090       2100
FACSNPSCKT CSRTARQTRI PIQVVVNGSM KTVYVHANGT GKFCKKHNFY 
      2110       2120       2130       2140       2150
CKNCDSYGFE NTFICDEIVR DLSNSVKQTV YATDRSHQEV TKVECSDGFY 
      2160       2170       2180       2190       2200
RFYVGDEFTS YDYDVKHKKY SSQEVLKSML LLDDFIVYSP SGSALANVRN 
      2210       2220       2230       2240       2250
ACVYFSQLIG KPIKIVNSDL LEDLSVDFKG ALFNAKKNVI KNSFNVDVSE 
      2260       2270       2280       2290       2300
CKNLDECYRA CNLNVSFSTF EMAVNNAHRF GILITDRSFN NFWPSKVKPG 
      2310       2320       2330       2340       2350
SSGVSAMDIG KCMTSDAKIV NAKVLTQRGK SVVWLSQDFA ALSSTAQKVL 
      2360       2370       2380       2390       2400
VKTFVEEGVN FSLTFNAVGS DDDLPYERFT ESVSPKSGSG FFDVITQLKQ 
      2410       2420       2430       2440       2450
IVILVFVFIF ICGLCSVYSV ATQSYIESAE GYDYMVIKNG IVQPFDDTIS 
      2460       2470       2480       2490       2500
CVHNTYKGFG DWFKAKYGFI PTFGKSCPIV VGTVFDLENM RPIPDVPAYV 
      2510       2520       2530       2540       2550
SIVGRSLVFA INAAFGVTNM CYDHTGNAVS KDSYFDTCVF NTACTTLTGL 
      2560       2570       2580       2590       2600
GGTIVYCAKQ GLVEGAKLYS DLMPDYYYEH ASGNMVKLPA IIRGLGLRFV 
      2610       2620       2630       2640       2650
KTQATTYCRV GECIDSKAGF CFGGDNWFVY DNEFGNGYIC GNSVLGFFKN 
      2660       2670       2680       2690       2700
VFKLFNSNMS VVATSGAMLV NIIIACLAIA MCYGVLKFKK IFGDCTFLIV 
      2710       2720       2730       2740       2750
MIIVTLVVNN VSYFVTQNTF FMIIYAIVYY FITRKLAYPG ILDAGFIIAY 
      2760       2770       2780       2790       2800
INMAPWYVIT AYILVFLYDS LPSLFKLKVS TNLFEGDKFV GNFESAAMGT 
      2810       2820       2830       2840       2850
FVIDMRSYET IVNSTSIARI KSYANSFNKY KYYTGSMGEA DYRMACYAHL 
      2860       2870       2880       2890       2900
GKALMDYSVN RTDMLYTPPT VSVNSTLQSG LRKMAQPSGL VEPCIVRVSY 
      2910       2920       2930       2940       2950
GNNVLNGLWL GDEVICPRHV IASDTTRVIN YENEMSSVRL HNFSVSKNNV 
      2960       2970       2980       2990       3000
FLGVVSARYK GVNLVLKVNQ VNPNTPEHKF KSIKAGESFN ILACYEGCPG 
      3010       3020       3030       3040       3050
SVYGVNMRSQ GTIKGSFIAG TCGSVGYVLE NGILYFVYMH HLELGNGSHV 
      3060       3070       3080       3090       3100
GSNFEGEMYG GYEDQPSMQL EGTNVMSSDN VVAFLYAALI NGERWFVTNT 
      3110       3120       3130       3140       3150
SMSLESYNTW AKTNSFTELS STDAFSMLAA KTGQSVEKLL DSIVRLNKGF 
      3160       3170       3180       3190       3200
GGRTILSYGS LCDEFTPTEV IRQMYGVNLQ AGKVKSFFYP IMTAMTILFA 
      3210       3220       3230       3240       3250
FWLEFFMYTP FTWINPTFVS IVLAVTTLIS TVFVSGIKHK MLFFMSFVLP 
      3260       3270       3280       3290       3300
SVILVTAHNL FWDFSYYESL QSIVENTNTM FLPVDMQGVM LTVFCFIVFV 
      3310       3320       3330       3340       3350
TYSVRFFTCK QSWFSLAVTT ILVIFNMVKI FGTSDEPWTE NQIAFCFVNM 
      3360       3370       3380       3390       3400
LTMIVSLTTK DWMVVIASYR IAYYIVVCVM PSAFVSDFGF MKCISIVYMA 
      3410       3420       3430       3440       3450
CGYLFCCYYG ILYWVNRFTC MTCGVYQFTV SAAELKYMTA NNLSAPKNAY 
      3460       3470       3480       3490       3500
DAMILSAKLI GVGGKRNIKI STVQSKLTEM KCTNVVLLGL LSKMHVESNS 
      3510       3520       3530       3540       3550
KEWNYCVGLH NEINLCDDPE IVLEKLLALI AFFLSKHNTC DLSELIESYF 
      3560       3570       3580       3590       3600
ENTTILQSVA SAYAALPSWI ALEKARADLE EAKKNDVSPQ ILKQLTKAFN 
      3610       3620       3630       3640       3650
IAKSDFEREA SVQKKLDKMA EQAAASMYKE ARAVDRKSKI VSAMHSLLFG 
      3660       3670       3680       3690       3700
MLKKLDMSSV NTIIDQARNG VLPLSIIPAA SATRLVVITP SLEVFSKIRQ 
      3710       3720       3730       3740       3750
ENNVHYAGAI WTIVEVKDAN GSHVHLKEVT AANELNLTWP LSITCERTTK 
      3760       3770       3780       3790       3800
LQNNEIMPGK LKERAVRASA TLDGEAFGSG KALMASESGK SFMYAFIASD 
      3810       3820       3830       3840       3850
NNLKYVKWES NNDIIPIELE APLRFYVDGA NGPEVKYLYF VKNLNTLRRG 
      3860       3870       3880       3890       3900
AVLGYIGATV RLQAGKPTEH PSNSSLLTLC AFSPDPAKAY VDAVKRGMQP 
      3910       3920       3930       3940       3950
VNNCVKMLSN GAGNGMAVTN GVEANTQQDS YGGASVCIYC RCHVEHPAID 
      3960       3970       3980       3990       4000
GLCRYKGKFV QIPTGTQDPI RFCIENEVCV VCGCWLNNGC MCDRTSMQSF 
      4010 
TVDQSYLNEC GVLVQLD
Note: Produced by conventional translation.
Length:4,017
Mass (Da):447,352
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:i97ED2B170C4FD248
GO
Isoform Replicase polyprotein 1ab (identifier: P0C6Y5-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab
The sequence of this isoform can be found in the external entry P0C6Y5.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:6,684
Mass (Da):748,912
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes natural variant(s) of the protein sequence.<p><a href='/help/variant' target='_top'>More...</a></p>Natural varianti572F → S in strain: Isolate Purdue-115. 1
Natural varianti1041E → D in strain: Isolate Purdue-115. 1
Natural varianti2375P → T in strain: Isolate Purdue-115. 1
Natural varianti2381E → Q in strain: Isolate Purdue-115. 1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
Z34093 mRNA Translation: CAA83979.1
AJ271965 Genomic RNA Translation: CAB91144.1

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
Z34093 mRNA Translation: CAA83979.1
AJ271965 Genomic RNA Translation: CAB91144.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...PDBei

Protein Data Bank RCSB

More...RCSB PDBi

Protein Data Bank Japan

More...PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1LVOX-ray1.96A/B/C/D/E/F2879-3180[»]
1P9UX-ray2.37A/B/C/D/E/F2879-3180[»]
2AMPX-ray2.70A/B2879-3180[»]
3MP2X-ray2.50A1071-1281[»]
3ZBDX-ray1.49A/B1-105[»]
4F49X-ray2.25A/B/C/D2879-3181[»]
6IVDX-ray1.98A/B1-105[»]
SMRiP0C6V2
ModBaseiSearch...
PDBe-KBiSearch...

Proteomic databases

PRIDEiP0C6V2

Enzyme and pathway databases

BRENDAi3.4.22.B14, 4985

Miscellaneous databases

EvolutionaryTraceiP0C6V2

Family and domain databases

Gene3Di1.10.150.420, 1 hit
1.10.1840.10, 1 hit
1.10.8.370, 1 hit
2.30.30.1000, 1 hit
2.40.10.10, 2 hits
2.40.10.250, 1 hit
2.40.10.290, 1 hit
3.40.220.10, 1 hit
3.90.70.90, 2 hits
InterProiView protein in InterPro
IPR032039, A-CoV_nsp1
IPR038634, A-CoV_nsp1_sf
IPR043613, CoV_NSP2_C
IPR043615, CoV_NSP2_N
IPR043611, CoV_NSP3_C
IPR043612, CoV_NSP4_N
IPR043610, CoV_NSP6
IPR002589, Macro_dom
IPR043472, Macro_dom-like
IPR036333, NSP10_sf_CoV
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
IPR043503, PLpro_palm_finger_dom_CoV
IPR018995, RNA_synth_NSP10_CoV
PfamiView protein in Pfam
PF16688, CNV-Replicase_N, 1 hit
PF09401, CoV_NSP10, 1 hit
PF19212, CoV_NSP2_C, 2 hits
PF19211, CoV_NSP2_N, 1 hit
PF19218, CoV_NSP3_C, 1 hit
PF16348, CoV_NSP4_C, 1 hit
PF19217, CoV_NSP4_N, 1 hit
PF19213, CoV_NSP6, 1 hit
PF08716, CoV_NSP7, 1 hit
PF08717, CoV_NSP8, 1 hit
PF08710, CoV_NSP9, 1 hit
PF08715, CoV_peptidase, 2 hits
PF01661, Macro, 1 hit
PF05409, Peptidase_C30, 1 hit
SMARTiView protein in SMART
SM00506, A1pp, 1 hit
SUPFAMiSSF101816, SSF101816, 1 hit
SSF140367, SSF140367, 1 hit
SSF143076, SSF143076, 1 hit
SSF144246, SSF144246, 2 hits
SSF50494, SSF50494, 1 hit
SSF52949, SSF52949, 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_CVPPU
<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: P0C6V2
Secondary accession number(s): Q9IW06
<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: December 2, 2020
This is version 81 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

3D-structure, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
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