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Entry version 78 (02 Dec 2020)
Sequence version 1 (10 Jun 2008)
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Protein

Replicase polyprotein 1a

Gene

1a

Organism
Human coronavirus NL63 (HCoV-NL63)
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-3.1 Publication
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

<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 sitei1062For PL1-PRO activityPROSITE-ProRule annotation1
Active sitei1212For PL1-PRO activityPROSITE-ProRule annotation1
Active sitei1678For PL2-PRO activityPROSITE-ProRule annotation1
Active sitei1836For PL2-PRO activityPROSITE-ProRule annotation1
Active sitei2980For 3CL-PRO activityPROSITE-ProRule annotation1
Active sitei3083For 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 fingeri1134 – 1165C4-type 1PROSITE-ProRule annotationAdd BLAST32
Zinc fingeri1757 – 1788C4-type 2; atypicalPROSITE-ProRule annotationAdd BLAST32
Zinc fingeri3982 – 3998By similarityAdd BLAST17
Zinc fingeri4024 – 4037By 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, 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

<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>OrganismiHuman coronavirus NL63 (HCoV-NL63)
<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 identifieri277944 [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 lineageiVirusesRiboviriaOrthornaviraePisuviricotaPisoniviricetesNidoviralesCornidovirineaeCoronaviridaeOrthocoronavirinaeAlphacoronavirusSetracovirus
<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
  • UP000008573 <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>Transmembranei1903 – 1923HelicalSequence analysisAdd BLAST21
Transmembranei1968 – 1988HelicalSequence analysisAdd BLAST21
Transmembranei2050 – 2070HelicalSequence analysisAdd BLAST21
Transmembranei2073 – 2093HelicalSequence analysisAdd BLAST21
Transmembranei2111 – 2131HelicalSequence analysisAdd BLAST21
Transmembranei2468 – 2488HelicalSequence analysisAdd BLAST21
Transmembranei2727 – 2747HelicalSequence analysisAdd BLAST21
Transmembranei2752 – 2769HelicalSequence analysisAdd BLAST18
Transmembranei2772 – 2792HelicalSequence analysisAdd BLAST21
Transmembranei2800 – 2820HelicalSequence analysisAdd BLAST21
Transmembranei3254 – 3274HelicalSequence analysisAdd BLAST21
Transmembranei3279 – 3299HelicalSequence analysisAdd BLAST21
Transmembranei3303 – 3323HelicalSequence analysisAdd BLAST21
Transmembranei3342 – 3362HelicalSequence analysisAdd BLAST21
Transmembranei3376 – 3396HelicalSequence analysisAdd BLAST21
Transmembranei3397 – 3417HelicalSequence analysisAdd BLAST21
Transmembranei3442 – 3462HelicalSequence 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

Chemistry databases

ChEMBL database of bioactive drug-like small molecules

More...
ChEMBLi
CHEMBL3232683

<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_00003382301 – 4060Replicase polyprotein 1aAdd BLAST4060
ChainiPRO_00003382311 – 110Non-structural protein 1By similarityAdd BLAST110
ChainiPRO_0000338232111 – 898Non-structural protein 2By similarityAdd BLAST788
ChainiPRO_0000338233899 – 2462Non-structural protein 3By similarityAdd BLAST1564
ChainiPRO_00003382342463 – 2939Non-structural protein 4By similarityAdd BLAST477
ChainiPRO_00003382352940 – 32423C-like proteinaseBy similarityAdd BLAST303
ChainiPRO_00003382363243 – 3521Non-structural protein 6By similarityAdd BLAST279
ChainiPRO_00003382373522 – 3604Non-structural protein 7By similarityAdd BLAST83
ChainiPRO_00003382383605 – 3799Non-structural protein 8By similarityAdd BLAST195
ChainiPRO_00003382393800 – 3908Non-structural protein 9By similarityAdd BLAST109
ChainiPRO_00003382403909 – 4043Non-structural protein 10By similarityAdd BLAST135
ChainiPRO_00003382414044 – 4060Non-structural protein 11Sequence analysisAdd BLAST17

<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.

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
Sitei898 – 899Cleavage; by PL1-PROBy similarity2
Sitei2462 – 2463Cleavage; by PL2-PROBy similarity2
Sitei2939 – 2940Cleavage; by 3CL-PROBy similarity2
Sitei3242 – 3243Cleavage; by 3CL-PROBy similarity2
Sitei3521 – 3522Cleavage; by 3CL-PROBy similarity2
Sitei3604 – 3605Cleavage; by 3CL-PROBy similarity2
Sitei3799 – 3800Cleavage; by 3CL-PROBy similarity2
Sitei3908 – 3909Cleavage; by 3CL-PROBy similarity2
Sitei4043 – 4044Cleavage; by 3CL-PROBy similarity2

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
P0C6U6

<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

Chemistry databases

BindingDB database of measured binding affinities

More...
BindingDBi
P0C6U6

<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

14060
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
P0C6U6

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
P0C6U6

<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>Domaini1021 – 1262Peptidase C16 1PROSITE-ProRule annotationAdd BLAST242
Domaini1263 – 1421MacroPROSITE-ProRule annotationAdd BLAST159
Domaini1640 – 1886Peptidase C16 2PROSITE-ProRule annotationAdd BLAST247
Domaini2940 – 3242Peptidase 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>Regioni1903 – 2131HD1By similarityAdd BLAST229
Regioni2468 – 2820HD2By similarityAdd BLAST353
Regioni3254 – 3462HD3By similarityAdd BLAST209

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 biasi625 – 628Poly-Leu4
Compositional biasi1975 – 1978Poly-Leu4

<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 fingeri1134 – 1165C4-type 1PROSITE-ProRule annotationAdd BLAST32
Zinc fingeri1757 – 1788C4-type 2; atypicalPROSITE-ProRule annotationAdd BLAST32
Zinc fingeri3982 – 3998By similarityAdd BLAST17
Zinc fingeri4024 – 4037By 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
2.40.10.10, 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
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
IPR011050, Pectin_lyase_fold/virulence
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
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, 1 hit
SSF50494, SSF50494, 1 hit
SSF51126, SSF51126, 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: P0C6U6-1) [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
MFYNQVTLAV ASDSEISGFG FAIPSVAVRT YSEAAAQGFQ ACRFVAFGLQ
60 70 80 90 100
DCVTGINDDD YVIALTGTNQ LCAKILPFSD RPLNLRGWLI FSNSNYVLQD
110 120 130 140 150
FDVVFGHGAG SVVFVDKYMC GFDGKPVLPK NMWEFRDYFN NNTDSIVIGG
160 170 180 190 200
VTYQLAWDVI RKDLSYEQQN VLAIESIHYL GTTGHTLKSG CKLTNAKPPK
210 220 230 240 250
YSSKVVLSGE WNAVYRAFGS PFITNGMSLL DIIVKPVFFN AFVKCNCGSE
260 270 280 290 300
SWSVGAWDGY LSSCCGTPAK KLCVVPGNVV PGDVIITSTS AGCGVKYYAG
310 320 330 340 350
LVVKHITNIT GVSLWRVTAV HSDGMFVASS SYDALLHRNS LDPFCFDVNT
360 370 380 390 400
LLSNQLRLAF LGASVTEDVK FAASTGVIDI SAGMFGLYDD ILTNNKPWFV
410 420 430 440 450
RKASGLFDAI WDAFVAAIKL VPTTTGVLVR FVKSIASTVL TVSNGVIIMC
460 470 480 490 500
ADVPDAFQSV YRTFTQAICA AFDFSLDVFK IGDVKFKRLG DYVLTENALV
510 520 530 540 550
RLTTEVVRGV RDARIKKAMF TKVVVGPTTE VKFSVIELAT VNLRLVDCAP
560 570 580 590 600
VVCPKGKIVV IAGQAFFYSG GFYRFMVDPT TVLNDPVFTG DLFYTIKFSG
610 620 630 640 650
FKLDGFNHQF VTASSATDAI IAVELLLLDF KTAVFVYTCV VDGCSVIVRR
660 670 680 690 700
DATFATHVCF KDCYNVWEQF CIDNCGEPWF LTDYNAILQS NNPQCAIVQA
710 720 730 740 750
SESKVLLERF LPKCPEILLS IDDGHLWNLF VEKFNFVTDW LKTLKLTLTS
760 770 780 790 800
NGLLGNCAKR FRRVLVKLLD VYNGFLETVC SVAYTAGVCI KYYAVNVPYV
810 820 830 840 850
VISGFVSRVI RRERCDMTFP CVSCVTFFYE FLDTCFGVSK PNAIDVEHLE
860 870 880 890 900
LKETVFVEPK DGGQFFVSGD YLWYVVDDIY YPASCNGVLP VAFTKLAGGK
910 920 930 940 950
ISFSDDVIVH DVEPTHKVKL IFEFEDDVVT SLCKKSFGKS IIYTGDWEGL
960 970 980 990 1000
HEVLTSAMNV IGQHIKLPQF YIYDEEGGYD VSKPVMISQW PISNDSNGCV
1010 1020 1030 1040 1050
VEASTDFHQL ECIVDDSVRE EVDIIEQPFE EVEHVLSIKQ PFSFSFRDEL
1060 1070 1080 1090 1100
GVRVLDQSDN NCWISTTLVQ LQLTKLLDDS IEMQLFKVGK VDSIVQKCYE
1110 1120 1130 1140 1150
LSHLISGSLG DSGKLLSELL KEKYTCSITF EMSCDCGKKF DDQVGCLFWI
1160 1170 1180 1190 1200
MPYTKLFQKG ECCICHKMQT YKLVSMKGTG VFVQDPAPID IDAFPVKPIC
1210 1220 1230 1240 1250
SSVYLGVKGS GHYQTNLYSF NKAIDGFGVF DIKNSSVNTV CFVDVDFHSV
1260 1270 1280 1290 1300
EIEAGEVKPF AVYKNVKFYL GDISHLVNCV SFDFVVNAAN ENLLHGGGVA
1310 1320 1330 1340 1350
RAIDILTEGQ LQSLSKDYIS SNGPLKVGAG VMLECEKFNV FNVVGPRTGK
1360 1370 1380 1390 1400
HEHSLLVEAY NSILFENGIP LMPLLSCGIF GVRIENSLKA LFSCDINKPL
1410 1420 1430 1440 1450
QVFVYSSNEE QAVLKFLDGL DLTPVIDDVD VVKPFRVEGN FSFFDCGVNA
1460 1470 1480 1490 1500
LDGDIYLLFT NSILMLDKQG QLLDTKLNGI LQQAALDYLA TVKTVPAGNL
1510 1520 1530 1540 1550
VKLFVESCTI YMCVVPSIND LSFDKNLGRC VRKLNRLKTC VIANVPAIDV
1560 1570 1580 1590 1600
LKKLLSSLTL TVKFVVESNV MDVNDCFKND NVVLKITEDG INVKDVVVES
1610 1620 1630 1640 1650
SKSLGKQLGV VSDGVDSFEG VLPINTDTVL SVAPEVDWVA FYGFEKAALF
1660 1670 1680 1690 1700
ASLDVKPYGY PNDFVGGFRV LGTTDNNCWV NATCIILQYL KPTFKSKGLN
1710 1720 1730 1740 1750
VLWNKFVTGD VGPFVSFIYF ITMSSKGQKG DAEEALSKLS EYLISDSIVT
1760 1770 1780 1790 1800
LEQYSTCDIC KSTVVEVKSA IVCASVLKDG CDVGFCPHRH KLRSRVKFVN
1810 1820 1830 1840 1850
GRVVITNVGE PIISQPSKLL NGIAYTTFSG SFDNGHYVVY DAANNAVYDG
1860 1870 1880 1890 1900
ARLFSSDLST LAVTAIVVVG GCVTSNVPTI VSEKISVMDK LDTGAQKFFQ
1910 1920 1930 1940 1950
FGDFVMNNIV LFLTWLLSMF SLLRTSIMKH DIKVIAKAPK RTGVILTRSF
1960 1970 1980 1990 2000
KYNIRSALFV IKQKWCVIVT LFKFLLLLYA IYALVFMIVQ FSPFNSLLCG
2010 2020 2030 2040 2050
DIVSGYEKST FNKDIYCGNS MVCKMCLFSY QEFNDLDHTS LVWKHIRDPI
2060 2070 2080 2090 2100
LISLQPFVIL VILLIFGNMY LRFGLLYFVA QFISTFGSFL GFHQKQWFLH
2110 2120 2130 2140 2150
FVPFDVLCNE FLATFIVCKI VLFVRHIIVG CNNADCVACS KSARLKRVPL
2160 2170 2180 2190 2200
QTIINGMHKS FYVNANGGTC FCNKHNFFCV NCDSFGPGNT FINGDIAREL
2210 2220 2230 2240 2250
GNVVKTAVQP TAPAYVIIDK VDFVNGFYRL YSGDTFWRYD FDITESKYSC
2260 2270 2280 2290 2300
KEVLKNCNVL ENFIVYNNSG SNITQIKNAC VYFSQLLCEP IKLVNSELLS
2310 2320 2330 2340 2350
TLSVDFNGVL HKAYVDVLCN SFFKELTANM SMAECKATLG LTVSDDDFVS
2360 2370 2380 2390 2400
AVANAHRYDV LLSDLSFNNF FISYAKPEDK LSVYDIACCM RAGSKVVNHN
2410 2420 2430 2440 2450
VLIKESIPIV WGVKDFNTLS QEGKKYLVKT TKAKGLTFLL TFNDNQAITQ
2460 2470 2480 2490 2500
VPATSIVAKQ GAGFKRTYNF LWYVCLFVVA LFIGVSFIDY TTTVTSFHGY
2510 2520 2530 2540 2550
DFKYIENGQL KVFEAPLHCV RNVFDNFNQW HEAKFGVVTT NSDKCPIVVG
2560 2570 2580 2590 2600
VSERINVVPG VPTNVYLVGK TLVFTLQAAF GNTGVCYDFD GVTTSDKCIF
2610 2620 2630 2640 2650
NSACTRLEGL GGDNVYCYNT DLIEGSKPYS TLQPNAYYKY DAKNYVRFPE
2660 2670 2680 2690 2700
ILARGFGLRT IRTLATRYCR VGECRDSHKG VCFGFDKWYV NDGRVDDGYI
2710 2720 2730 2740 2750
CGDGLIDLLV NVLSIFSSSF SVVAMSGHML FNFLFAAFIT FLCFLVTKFK
2760 2770 2780 2790 2800
RVFGDLSYGV FTVVCATLIN NISYVVTQNL FFMLLYAILY FVFTRTVRYA
2810 2820 2830 2840 2850
WIWHIAYIVA YFLLIPWWLL TWFSFAAFLE LLPNVFKLKI STQLFEGDKF
2860 2870 2880 2890 2900
IGTFESAAAG TFVLDMRSYE RLINTISPEK LKNYAASYNK YKYYSGSASE
2910 2920 2930 2940 2950
ADYRCACYAH LAKAMLDYAK DHNDMLYSPP TISYNSTLQS GLKKMAQPSG
2960 2970 2980 2990 3000
CVERCVVRVC YGSTVLNGVW LGDTVTCPRH VIAPSTTVLI DYDHAYSTMR
3010 3020 3030 3040 3050
LHNFSVSHNG VFLGVVGVTM HGSVLRIKVS QSNVHTPKHV FKTLKPGDSF
3060 3070 3080 3090 3100
NILACYEGIA SGVFGVNLRT NFTIKGSFIN GACGSPGYNV RNDGTVEFCY
3110 3120 3130 3140 3150
LHQIELGSGA HVGSDFTGSV YGNFDDQPSL QVESANLMLS DNVVAFLYAA
3160 3170 3180 3190 3200
LLNGCRWWLC STRVNVDGFN EWAMANGYTS VSSVECYSIL AAKTGVSVEQ
3210 3220 3230 3240 3250
LLASIQHLHE GFGGKNILGY SSLCDEFTLA EVVKQMYGVN LQSGKVIFGL
3260 3270 3280 3290 3300
KTMFLFSVFF TMFWAELFIY TNTIWINPVI LTPIFCLLLF LSLVLTMFLK
3310 3320 3330 3340 3350
HKFLFLQVFL LPTVIATALY NCVLDYYIVK FLADHFNYNV SVLQMDVQGL
3360 3370 3380 3390 3400
VNVLVCLFVV FLHTWRFSKE RFTHWFTYVC SLIAVAYTYF YSGDFLSLLV
3410 3420 3430 3440 3450
MFLCAISSDW YIGAIVFRLS RLIVFFSPES VFSVFGDVKL TLVVYLICGY
3460 3470 3480 3490 3500
LVCTYWGILY WFNRFFKCTM GVYDFKVSAA EFKYMVANGL HAPHGPFDAL
3510 3520 3530 3540 3550
WLSFKLLGIG GDRCIKISTV QSKLTDLKCT NVVLLGCLSS MNIAANSSEW
3560 3570 3580 3590 3600
AYCVDLHNKI NLCDDPEKAQ SMLLALLAFF LSKHSDFGLD GLIDSYFDNS
3610 3620 3630 3640 3650
STLQSVASSF VSMPSYIAYE NARQAYEDAI ANGSSSQLIK QLKRAMNIAK
3660 3670 3680 3690 3700
SEFDHEISVQ KKINRMAEQA ATQMYKEARS VNRKSKVISA MHSLLFGMLR
3710 3720 3730 3740 3750
RLDMSSVETV LNLARDGVVP LSVIPATSAS KLTIVSPDLE SYSKIVCDGS
3760 3770 3780 3790 3800
VHYAGVVWTL NDVKDNDGRP VHVKEITKEN VETLTWPLIL NCERVVKLQN
3810 3820 3830 3840 3850
NEIMPGKLKQ KPMKAEGDGG VLGDGNALYN TEGGKTFMYA YISNKADLKF
3860 3870 3880 3890 3900
VKWEYEGGCN TIELDSPCRF MVETPNGPQV KYLYFVKNLN TLRRGAVLGF
3910 3920 3930 3940 3950
IGATIRLQAG KQTELAVNSG LLTACAFSVD PATTYLEAVK HGAKPVSNCI
3960 3970 3980 3990 4000
KMLSNGAGNG QAITTSVDAN TNQDSYGGAS ICLYCRAHVP HPSMDGYCKF
4010 4020 4030 4040 4050
KGKCVQVPIG CLDPIRFCLE NNVCNVCGCW LGHGCACDRT TIQSVDISYL
4060
NEQGVLVQLD
Note: Produced by conventional translation.
Length:4,060
Mass (Da):451,388
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:i0F6313C474B7ED9C
GO
Isoform Replicase polyprotein 1ab (identifier: P0C6X5-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab
The sequence of this isoform can be found in the external entry P0C6X5.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:6,729
Mass (Da):752,702
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
AY567487 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
AY567487 Genomic RNA No translation available.

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

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RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2VRIX-ray1.80A1258-1421[»]
3TLOX-ray1.60A/B2940-3242[»]
5GWYX-ray2.85A/B2940-3242[»]
SMRiP0C6U6
ModBaseiSearch...
PDBe-KBiSearch...

Chemistry databases

BindingDBiP0C6U6
ChEMBLiCHEMBL3232683

Proteomic databases

PRIDEiP0C6U6

Miscellaneous databases

EvolutionaryTraceiP0C6U6

Family and domain databases

Gene3Di1.10.150.420, 1 hit
1.10.1840.10, 1 hit
1.10.8.370, 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
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
IPR011050, Pectin_lyase_fold/virulence
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
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, 1 hit
SSF50494, SSF50494, 1 hit
SSF51126, SSF51126, 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

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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_CVHNL
<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: P0C6U6
Secondary accession number(s): Q6Q1S3
<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 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

3D-structure

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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