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Entry version 71 (11 Dec 2019)
Sequence version 1 (10 Jun 2008)
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Protein

Replicase polyprotein 1a

Gene

1a

Organism
Human coronavirus HKU1 (isolate N2) (HCoV-HKU1)
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 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

Miscellaneous

Isolate N2 belongs to genotype B.

<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 sitei1131For PL1-PRO activityPROSITE-ProRule annotation1
Active sitei1282For PL1-PRO activityPROSITE-ProRule annotation1
Active sitei1727For PL2-PRO activityPROSITE-ProRule annotation1
Active sitei1884For PL2-PRO activityPROSITE-ProRule annotation1
Active sitei3345For 3CL-PRO activityPROSITE-ProRule annotation1
Active sitei3449For 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 fingeri1208 – 1236C4-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri1805 – 1841C4-type 2PROSITE-ProRule annotationAdd BLAST37
Zinc fingeri4364 – 4380By similarityAdd BLAST17
Zinc fingeri4406 – 4419By 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):
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%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>OrganismiHuman coronavirus HKU1 (isolate N2) (HCoV-HKU1)
<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 identifieri443240 [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 lineageiVirusesRiboviriaNidoviralesCornidovirineaeCoronaviridaeOrthocoronavirinaeBetacoronavirusEmbecovirus
<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 hostiHomo sapiens (Human) [TaxID: 9606]
<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
  • UP000006551 <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.
  • 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.
  • 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.
  • 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.

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>Transmembranei2196 – 2216HelicalSequence analysisAdd BLAST21
Transmembranei2257 – 2277HelicalSequence analysisAdd BLAST21
Transmembranei2288 – 2308HelicalSequence analysisAdd BLAST21
Transmembranei2371 – 2391HelicalSequence analysisAdd BLAST21
Transmembranei2413 – 2433HelicalSequence analysisAdd BLAST21
Transmembranei2814 – 2834HelicalSequence analysisAdd BLAST21
Transmembranei3089 – 3109HelicalSequence analysisAdd BLAST21
Transmembranei3121 – 3141HelicalSequence analysisAdd BLAST21
Transmembranei3148 – 3168HelicalSequence analysisAdd BLAST21
Transmembranei3173 – 3193HelicalSequence analysisAdd BLAST21
Transmembranei3621 – 3641HelicalSequence analysisAdd BLAST21
Transmembranei3646 – 3666HelicalSequence analysisAdd BLAST21
Transmembranei3671 – 3691HelicalSequence analysisAdd BLAST21
Transmembranei3714 – 3734HelicalSequence analysisAdd BLAST21
Transmembranei3742 – 3762HelicalSequence analysisAdd BLAST21
Transmembranei3770 – 3790HelicalSequence analysisAdd BLAST21
Transmembranei3813 – 3833HelicalSequence 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.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00003382061 – 4441Replicase polyprotein 1aAdd BLAST4441
ChainiPRO_00003382071 – 222Non-structural protein 1By similarityAdd BLAST222
ChainiPRO_0000338208223 – 809Non-structural protein 2By similarityAdd BLAST587
ChainiPRO_0000338209810 – 2808Non-structural protein 3By similarityAdd BLAST1999
ChainiPRO_00003382102809 – 3304Non-structural protein 4By similarityAdd BLAST496
ChainiPRO_00003382113305 – 36073C-like proteinaseBy similarityAdd BLAST303
ChainiPRO_00003382123608 – 3894Non-structural protein 6By similarityAdd BLAST287
ChainiPRO_00003382133895 – 3986Non-structural protein 7By similarityAdd BLAST92
ChainiPRO_00003382143987 – 4180Non-structural protein 8By similarityAdd BLAST194
ChainiPRO_00003382154181 – 4290Non-structural protein 9By similarityAdd BLAST110
ChainiPRO_00003382164291 – 4427Non-structural protein 10By similarityAdd BLAST137
ChainiPRO_00003382174428 – 4441Non-structural protein 11Sequence analysisAdd BLAST14

<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>Sitei222 – 223Cleavage; by PL1-PROBy similarity2
Sitei809 – 810Cleavage; by PL1-PROBy similarity2
Sitei2808 – 2809Cleavage; by PL2-PROBy similarity2
Sitei3304 – 3305Cleavage; by 3CL-PROBy similarity2
Sitei3607 – 3608Cleavage; by 3CL-PROBy similarity2
Sitei3894 – 3895Cleavage; by 3CL-PROBy similarity2
Sitei3986 – 3987Cleavage; by 3CL-PROBy similarity2
Sitei4180 – 4181Cleavage; by 3CL-PROBy similarity2
Sitei4290 – 4291Cleavage; by 3CL-PROBy similarity2
Sitei4427 – 4428Cleavage; by 3CL-PROBy similarity2

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
P0C6U4

<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
P0C6U4

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 'Family and Domains' section indicates the positions and types of repeated sequence motifs or repeated domains within the protein.<p><a href='/help/repeat' target='_top'>More...</a></p>Repeati945 – 954110
Repeati955 – 964210
Repeati965 – 974310
Repeati975 – 984410
Repeati985 – 994510
Repeati995 – 1004610
Repeati1005 – 1014710
Repeati1015 – 1024810
Repeati1025 – 1034910
Repeati1035 – 10441010
Repeati1045 – 10541110
<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>Domaini1093 – 1343Peptidase C16 1PROSITE-ProRule annotationAdd BLAST251
Domaini1321 – 1492MacroPROSITE-ProRule annotationAdd BLAST172
Domaini1688 – 1948Peptidase C16 2PROSITE-ProRule annotationAdd BLAST261
Domaini3305 – 3607Peptidase 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>Regioni945 – 105411 X 10 AA tandem repeat of N-[DN]-D-E-D-V-V-T-G-DAdd BLAST110
Regioni2196 – 2433HD1By similarityAdd BLAST238
Regioni2814 – 3193HD2By similarityAdd BLAST380
Regioni3621 – 3833HD3By 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 biasi934 – 1086Asp-richAdd BLAST153
Compositional biasi2199 – 2291Phe-richAdd BLAST93
Compositional biasi2586 – 2589Poly-Val4

<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 fingeri1208 – 1236C4-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri1805 – 1841C4-type 2PROSITE-ProRule annotationAdd BLAST37
Zinc fingeri4364 – 4380By similarityAdd BLAST17
Zinc fingeri4406 – 4419By 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
IPR014827 Viral_protease

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF16348 Corona_NSP4_C, 1 hit
PF11963 DUF3477, 1 hit
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

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.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by ribosomal frameshifting. AlignAdd to basket
Isoform Replicase polyprotein 1a (identifier: P0C6U4-1) [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
MIKTSKYGLG FKWAPEFRWL LPDAAEELAS PMKSDEGGLC PSTGQAMESV
60 70 80 90 100
GFVYDNHVKI DCRCILGQEW HVQSNLIRDI FVHEDLHVVE VLTKTAVKSG
110 120 130 140 150
TAILIKSPLH SLGGFPKGYV MGLFRSYKTK RYVVHHLSMT TSTTNFGEDF
160 170 180 190 200
LGWIVPFGFM PSYVHKWFQF CRLYIEESDL IISNFKFDDY DFSVEDAYAE
210 220 230 240 250
VHAEPKGKYS QKAYALLRQY RGIKPVLFVD QYGCDYSGKL ADCLQAYGHY
260 270 280 290 300
SLQDMRQKQS VWLANCDFDI VVAWHVVRDS RFVMRLQTIA TICGIKYVAQ
310 320 330 340 350
PTEDVVDGAV VIREPVHLLS ADAIVLKLPS LMKVMTHMDD FSIKSIYNVD
360 370 380 390 400
LCDCGFVMQY GYVDCFNDNC DFYGWVSGNM MDGFSCPLCC TVYDSSEVKA
410 420 430 440 450
QSSGVIPENP VLFTNSTDTV NPDSFNLYGY SVTPFGSCIY WSPRPGLWIP
460 470 480 490 500
IIKSSVKSYD DLVYSGVVGC KSIVKETALI THALYLDYVQ CKCGNLEQNH
510 520 530 540 550
ILGVNNSWCR QLLLNRGDYN MLLKNIDLFV KRRADFACKF AVCGDGFVPF
560 570 580 590 600
LLDGLIPRSY YLIQSGIFFT SLMSQFSQEV SDMCLKMCIL FMDRVSVATF
610 620 630 640 650
YIEHYVNRLV TQFKLLGTTL VNKMVNWFNT MLDASAPATG WLLYQLLNGL
660 670 680 690 700
FVVSQANFNF VALIPDYAKI LVNKFYTFFK LLLECVTVDV LKDMPVLKTI
710 720 730 740 750
NGLVCIVGNK FYNVSTGLIP GFVLPCNAQE QQIYFFEGVA ESVIVEDDVI
760 770 780 790 800
ENVKSSLSSY EYCQPPKSVE KICIIDNMYM GKCGDKFFPI VMNDKNICLL
810 820 830 840 850
DQAWRFPCAG RKVNFNEKPV VMEIPSLMTV KVMFDLDSTF DDILGKVCSE
860 870 880 890 900
FEVEKGVTVD DFVAVVCDAI ENALNSCKDH PVVGYQVRAF LNKLNENVVY
910 920 930 940 950
LFDEAGDEAM ASRMYCTFAI EDVEDVISSE AVEDTIDGVV EDTINDDEDV
960 970 980 990 1000
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV
1010 1020 1030 1040 1050
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV
1060 1070 1080 1090 1100
VTGDNDDEEI VTGDNDDQIV VTGDDVDDIE SVYDFDTYKA LLVFNDVYND
1110 1120 1130 1140 1150
ALFVSYGSSV ETETYFKVNG LWSPTITHTN CWLRSVLLVM QKLPFKFKDL
1160 1170 1180 1190 1200
AIENMWLSYK VGYNQSFVDY LLTTIPKAIV LPQGGYVADF AYWFLNQFDI
1210 1220 1230 1240 1250
NAYANWCCLK CGFSFDLNGL DAVFFYGDIV SHVCKCGHNM TLIAADLPCT
1260 1270 1280 1290 1300
LHFSLFDDNF CAFCTPKKIF IAACAVDVNV CHSVAVIGDE QIDGKFVTKF
1310 1320 1330 1340 1350
SGDKFDFIVG YGMSFSMSSF ELAQLYGLCI TPNVCFVKGD IINVARLVKA
1360 1370 1380 1390 1400
DVIVNPANGH MLHGGGVAKA IAVAAGKKFS KETAAMVKSK GVCQVGDCYV
1410 1420 1430 1440 1450
STGGKLCKTI LNIVGPDARQ DGRQSYVLLA RAYKHLNNYD CCLSTLISAG
1460 1470 1480 1490 1500
IFSVPADVSL TYLLGVVDKQ VILVSNNKED FDIIQKCQIT SVVGTKALAV
1510 1520 1530 1540 1550
RLTANVGRVI KFETDAYKLF LSGDDCFVSN SSVIQEVLLL RHDIQLNNDV
1560 1570 1580 1590 1600
RDYLLSKMTS LPKDWRLINK FDVINGVKTV KYFECPNSIY ICSQGKDFGY
1610 1620 1630 1640 1650
VCDGSFYKAT VNQVCVLLAK KIDVLLTVDG VNFKSISLTV GEVFGKILGN
1660 1670 1680 1690 1700
VFCDGIDVTK LKCSDFYADK ILYQYENLSL ADISAVQSSF GFDQQQLLAY
1710 1720 1730 1740 1750
YNFLTVCKWS VVVNGPFFSF EQSHNNCYVN VACLMLQHIN LKFNKWQWQE
1760 1770 1780 1790 1800
AWYEFRAGRP HRLVALVLAK GHFKFDEPSD ATDFIRVVLK QADLSGAICE
1810 1820 1830 1840 1850
LELICDCGIK QESRVGVDAV MHFGTLAKTD LFNGYKIGCN CAGRIVHCTK
1860 1870 1880 1890 1900
LNVPFLICSN TPLSKDLPDD VVAANMFMGV GVGHYTHLKC GSPYQHYDAC
1910 1920 1930 1940 1950
SVKKYTGVSG CLTDCLYLKN LTQTFTSMLT NYFLDDVEMV AYNPDLSQYY
1960 1970 1980 1990 2000
CDNGKYYTKP IIKAQFKPFA KVDGVYTNFK LVGHDICAQL NDKLGFNVDL
2010 2020 2030 2040 2050
PFVEYKVTVW PVATGDVVLA SDDLYVKRYF KGCETFGKPV IWLCHDEASL
2060 2070 2080 2090 2100
NSLTYFNKPS FKSENRYSVL SVDSVSEESQ GNVVTSVMES QISTKEVKLK
2110 2120 2130 2140 2150
GVRKTVKIED AIIVNDENSS IKVVKSLSLV DVWDMYLTGC DYVVWVANEL
2160 2170 2180 2190 2200
SRLVKSPTVR EYIRYGIKPI TIPIDLLCLR DDNQTLLVPK IFKARAIEFY
2210 2220 2230 2240 2250
GFLKWLFIYV FSLLHFTNDK TIFYTTEIAS KFTFNLFCLA LKNAFQTFRW
2260 2270 2280 2290 2300
SIFIKGFLVV ATVFLFWFNF LYINVIFSDF YLPNISVFPI FVGRIVMWIK
2310 2320 2330 2340 2350
ATFGLVTICD FYSKLGVGFT SHFCNGSFIC ELCYSGFDML DTYAAIDFVQ
2360 2370 2380 2390 2400
YEVDRRVLFD YVSLVKLIVE LVIGYSLYTV WFYPLFCLIG LQLFTTWLPD
2410 2420 2430 2440 2450
LFMLETMHWL IRFIVFVANM LPAFVLLRFY IVVTAMYKVV GFIRHIVYGC
2460 2470 2480 2490 2500
NKAGCLFCYK RNCSVRVKCS TIVGGVIRYY DITANGGTGF CVKHQWNCFN
2510 2520 2530 2540 2550
CHSFKPGNTF ITVEAAIELS KELKRPVNPT DASHYVVTDI KQVGCMMRLF
2560 2570 2580 2590 2600
YDRDGQRVYD DVDASLFVDI NNLLHSKVKV VPNLYVVVVE SDADRANFLN
2610 2620 2630 2640 2650
AVVFYAQSLY RPILLVDKKL ITTACNGISV TQTMFDVYVD TFMSHFDVDR
2660 2670 2680 2690 2700
KSFNNFVNIA HASLREGVQL EKVLDTFVGC VRKCCSIDSD VETRFITKSM
2710 2720 2730 2740 2750
ISAVAAGLEF TDENYNNLVP TYLKSDNIVA ADLGVLIQNG AKHVQGNVAK
2760 2770 2780 2790 2800
AANISCIWFI DTFNQLTADL QHKLKKACVK TGLKLKLTFN KQEASVPILT
2810 2820 2830 2840 2850
TPFSLKGGVV LSNLLYILFF ISLICFILLW ALLPTYSVYK SDIHLPAYAS
2860 2870 2880 2890 2900
FKVIDNGVVR DISVNDLCFA NKFFQFDQWY ESTFGSFYYH NSMDCPIVVA
2910 2920 2930 2940 2950
VMDEDIGSTM FNVPTKVLRH GFHVLHFLTY AFASDSVQCY TPHIQISYND
2960 2970 2980 2990 3000
FYASGCVLSS LCTMFKRGDG TPHPYCYSDG VMKNASLYTS LVPHTRYSLA
3010 3020 3030 3040 3050
NSNGFIRFPD VISEGIVRIV RTRSMTYCRV GACEYAEEGI CFNFNSSWVL
3060 3070 3080 3090 3100
NNDYYRSMPG TFCGRDLFDL FYQFFSSLIR PIDFFSLTAS SIFGAILAIV
3110 3120 3130 3140 3150
VVLVFYYLIK LKRAFGDYTS VVVINVIVWC INFLMLFVFQ VYPICACVYA
3160 3170 3180 3190 3200
CFYFYVTLYF PSEISVIMHL QWIVMYGAIM PFWFCVTYVA MVIANHVLWL
3210 3220 3230 3240 3250
FSYCRKIGVN VCNDSTFEET SLTTFMITKD SYCRLKNSVS DVAYNRYLSL
3260 3270 3280 3290 3300
YNKYRYYSGK MDTAAYREAA CSQLAKAMET FNHNNGNDVL YQPPTASVST
3310 3320 3330 3340 3350
SFLQSGIVKM VSPTSKIEPC IVSVTYGSMT LNGLWLDDKV YCPRHVICLS
3360 3370 3380 3390 3400
SNMNEPDYSA LLCRVTLGDF TIMSGRMSLT VVSYQMQGCQ LVLTVSLQNP
3410 3420 3430 3440 3450
YTPKYTFGVV KPGETFTVLA AYNGRPQGAF HVTMRSSYTI KGSFLCGSCG
3460 3470 3480 3490 3500
SVGYVLTGDS VKFVYMHQLE LSTGCHTGTD FTGNFYGPYR DAQVVQLPVK
3510 3520 3530 3540 3550
DYVQTVNVIA WLYAAILNNC AWFVQNDVCS IEDFNVWAMT NGFSQVKADL
3560 3570 3580 3590 3600
VLDALASMTG VSIETLLAAI KRLYMGFQGR QILGSCTFED ELAPSDVYQQ
3610 3620 3630 3640 3650
LAGVKLQSKT KRFIKETIYW ILISTFLFSC IISAFVKWTI FMYINTHMIG
3660 3670 3680 3690 3700
VTLCVLCFVS FMMLLVKHKH FYLTMYIIPV LCTLFYVNYL VVYKEGFRGL
3710 3720 3730 3740 3750
TYVWLSYFVP AVNFTYVYEV FYGCILCVFA IFITMHSINH DIFSLMFLVG
3760 3770 3780 3790 3800
RIVTLISMWY FGSNLEEDVL LFITAFLGTY TWTTILSLAI AKIVANWLSV
3810 3820 3830 3840 3850
NIFYFTDVPY IKLILLSYLF IGYILSCYWG FFSLLNSVFR MPMGVYNYKI
3860 3870 3880 3890 3900
SVQELRYMNA NGLRPPRNSF EAILLNLKLL GIGGVPVIEV SQIQSKLTDV
3910 3920 3930 3940 3950
KCANVVLLNC LQHLHVASNS RLWQYCSILH NEILSTSDLS VAFDKLAQLL
3960 3970 3980 3990 4000
IVLFANPAAV DTKCLASIDE VSDDYVQDST VLQALQSEFV NMASFVEYEV
4010 4020 4030 4040 4050
AKKNLADAKN SGSVNQQQIK QLEKACNIAK SVYERDKAVA RKLERMADLA
4060 4070 4080 4090 4100
LTNMYKEARI NDKKSKVVSA LQTMLFSMVR KLDNQALNSI LDNAVKGCVP
4110 4120 4130 4140 4150
LNAIPALAAN TLTIIIPDKQ VFDKVVDNVY VAYAGSVWHI QTVQDADGIN
4160 4170 4180 4190 4200
KQLTDISVDS NWPLVIIANR YNEVANAVMQ NNELMPHKLK IQVVNSGSDM
4210 4220 4230 4240 4250
NCNIPTQCYY NNGSSGRIVY AVLSDVDGLK YTKIIKDDGN CVVLELDPPC
4260 4270 4280 4290 4300
KFSIQDVKGL KIKYLYFIKG CNTLARGWVV GTLSSTIRLQ AGVATEYAAN
4310 4320 4330 4340 4350
SSILSLCAFS VDPKKTYLDY IQQGGVPIIN CVKMLCDHAG TGMAITIKPE
4360 4370 4380 4390 4400
ATINQDSYGG ASVCIYCRAR VEHPDVDGLC KLRGKFVQVP LGIKDPILYV
4410 4420 4430 4440
LTHDVCQVCG FWRDGSCSCV GSGVAVQSKD LNFLNGFGVL V
Note: Produced by conventional translation.
Length:4,441
Mass (Da):499,423
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:i9BED41AF10453162
GO
Isoform Replicase polyprotein 1ab (identifier: P0C6X3-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab
The sequence of this isoform can be found in the external entry P0C6X3.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:7,152
Mass (Da):807,495
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
AY884001 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
AY884001 Genomic RNA No translation available.

3D structure databases

SMRiP0C6U4
ModBaseiSearch...

Proteomic databases

PRIDEiP0C6U4

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
IPR014827 Viral_protease
PfamiView protein in Pfam
PF16348 Corona_NSP4_C, 1 hit
PF11963 DUF3477, 1 hit
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
PROSITEiView protein in PROSITE
PS51442 M_PRO, 1 hit
PS51154 MACRO, 1 hit
PS51124 PEPTIDASE_C16, 2 hits

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_CVHN2
<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: P0C6U4
Secondary accession number(s): Q14EB2
<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 11, 2019
This is version 71 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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