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UniProtKB - K9N638 (R1A_CVEMC)

Entry version 40 (05 Jun 2019)
Sequence version 1 (06 Mar 2013)
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Protein

Replicase polyprotein 1a

Gene

1a

Organism
Middle East respiratory syndrome-related coronavirus (isolate United Kingdom/H123990006/2012) (Betacoronavirus England 1) (Human coronavirus EMC)
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 replicase polyprotein of coronaviruses is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products.By similarity
Host translation inhibitor nsp1: Promotes the degradation of host mRNAs by inducing an endonucleolytic RNA cleavage in template mRNAs, and inhibits of host mRNA translation, a function that is separable from its RNA cleavage activity. By suppressing host gene expression, nsp1 facilitates efficient viral gene expression in infected cells and evasion from host immune response.1 Publication
Non-structural protein 2: May play a role in the modulation of host cell survival signaling pathway by interacting with host PHB and PHB2. Indeed, these two proteins play a role in maintaining the functional integrity of the mitochondria and protecting cells from various stresses.By similarity
Papain-like proteinase: Responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PL-PRO possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. Participates together with nsp4 in the assembly of virally-induced cytoplasmic double-membrane vesicles necessary for viral replication. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF3. Prevents also host NF-kappa-B signaling.By similarity1 Publication
Non-structural protein 4: Participates in the assembly of virally-induced cytoplasmic double-membrane vesicles necessary for viral replication.By similarity
Proteinase 3CL-PRO: Cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Also able to bind an ADP-ribose-1''-phosphate (ADRP).PROSITE-ProRule annotationBy similarity
Non-structural protein 6: Plays a role in the initial induction of autophagosomes from host reticulum endoplasmic. Later, limits the expansion of these phagosomes that are no longer able to deliver viral components to lysosomes.By similarity
Non-structural protein 7: Forms a hexadecamer with nsp8 (8 subunits of each) that may participate in viral replication by acting as a primase. Alternatively, may synthesize substantially longer products than oligonucleotide primers.By similarity
Non-structural protein 8: Forms a hexadecamer with nsp7 (8 subunits of each) that may participate in viral replication by acting as a primase. Alternatively, may synthesize substantially longer products than oligonucleotide primers.By similarity
Non-structural protein 9: May participate in viral replication by acting as a ssRNA-binding protein.By similarity
Non-structural protein 10: Plays a pivotal role in viral transcription by stimulating both nsp14 3'-5' exoribonuclease and nsp16 2'-O-methyltransferase activities. Therefore plays an essential role in viral mRNAs cap methylation.By similarity

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

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei1592For PL-PRO activityPROSITE-ProRule annotation1
Active sitei1759For PL-PRO activityPROSITE-ProRule annotation1
Active sitei3288For 3CL-PRO activityPROSITE-ProRule annotation1
Active sitei3395For 3CL-PRO activityPROSITE-ProRule annotation1
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the ‘Description’ field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi4311Zinc1
Metal bindingi4314Zinc1
Metal bindingi4320Zinc1
Metal bindingi4327Zinc1
Metal bindingi4354Zinc1
Metal bindingi4357Zinc1
Metal bindingi4365Zinc1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section specifies the position(s) and type(s) of zinc fingers within the protein.<p><a href='/help/zn_fing' target='_top'>More...</a></p>Zinc fingeri1672 – 1709C4-typePROSITE-ProRule annotationAdd BLAST38
Zinc fingeri4311 – 4327Add BLAST17
Zinc fingeri4354 – 4367Add 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, 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_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Replicase polyprotein 1a
Short name:
pp1a
Alternative name(s):
ORF1a polyprotein
Cleaved into the following 11 chains:
Host translation inhibitor nsp1
Short name:
nsp1
Alternative name(s):
Leader protein
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p65 homolog
Papain-like proteinase (EC:3.4.19.12, EC:3.4.22.69)
Short name:
PL-PRO
Alternative name(s):
Non-structural protein 3
Short name:
nsp3
Non-structural protein 4
Short name:
nsp4
3C-like proteinase (EC:3.4.22.-)
Short name:
3CL-PRO
Short name:
3CLp
Alternative name(s):
nsp5
Non-structural protein 6
Short name:
nsp6
Non-structural protein 7
Short name:
nsp7
Non-structural protein 8
Short name:
nsp8
Non-structural protein 9
Short name:
nsp9
Non-structural protein 10
Short name:
nsp10
Alternative name(s):
Growth factor-like peptide
Short name:
GFL
Non-structural protein 11
Short name:
nsp11
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
ORF Names:1a
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiMiddle East respiratory syndrome-related coronavirus (isolate United Kingdom/H123990006/2012) (Betacoronavirus England 1) (Human coronavirus EMC)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri1263720 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiViruses › Riboviria › Nidovirales › Cornidovirineae › Coronaviridae › Orthocoronavirinae › Betacoronavirus › Merbecovirus ›
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section only exists in viral entries and indicates the host(s) either as a specific organism or taxonomic group of organisms that are susceptible to be infected by a virus.<p><a href='/help/virus_host' target='_top'>More...</a></p>Virus hostiCamelus dromedarius (Dromedary) (Arabian camel) [TaxID: 9838]
Homo sapiens (Human) [TaxID: 9606]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000139997 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Genome

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

Papain-like proteinase :
Non-structural protein 4 :
Non-structural protein 6 :
Non-structural protein 7 :
  • 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
Non-structural protein 8 :
  • 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
Non-structural protein 9 :
  • 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
Non-structural protein 10 :
  • host perinuclear region By similarity
    • Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes (By similarity).By similarity

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei2105 – 2125HelicalSequence analysisAdd BLAST21
Transmembranei2177 – 2197HelicalSequence analysisAdd BLAST21
Transmembranei2281 – 2301HelicalSequence analysisAdd BLAST21
Transmembranei2305 – 2325HelicalSequence analysisAdd BLAST21
Transmembranei2330 – 2350HelicalSequence analysisAdd BLAST21
Transmembranei2757 – 2777HelicalSequence analysisAdd BLAST21
Transmembranei3028 – 3048HelicalSequence analysisAdd BLAST21
Transmembranei3062 – 3082HelicalSequence analysisAdd BLAST21
Transmembranei3104 – 3124HelicalSequence analysisAdd BLAST21
Transmembranei3125 – 3145HelicalSequence analysisAdd BLAST21
Transmembranei3559 – 3579HelicalSequence analysisAdd BLAST21
Transmembranei3593 – 3613HelicalSequence analysisAdd BLAST21
Transmembranei3618 – 3638HelicalSequence analysisAdd BLAST21
Transmembranei3664 – 3684HelicalSequence analysisAdd BLAST21
Transmembranei3691 – 3711HelicalSequence analysisAdd BLAST21
Transmembranei3740 – 3760HelicalSequence analysisAdd BLAST21
Transmembranei3765 – 3785HelicalSequence 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.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004224541 – 193Host translation inhibitor nsp1By similarityAdd BLAST193
ChainiPRO_0000422455194 – 853Non-structural protein 2By similarityAdd BLAST660
ChainiPRO_0000422456854 – 2740Papain-like proteinaseBy similarityAdd BLAST1887
ChainiPRO_00004224572741 – 3247Non-structural protein 4Sequence analysisAdd BLAST507
ChainiPRO_00004224583248 – 35533C-like proteinaseBy similarityAdd BLAST306
ChainiPRO_00004224593554 – 3845Non-structural protein 6By similarityAdd BLAST292
ChainiPRO_00004224603846 – 3928Non-structural protein 7By similarityAdd BLAST83
ChainiPRO_00004224613929 – 4127Non-structural protein 8By similarityAdd BLAST199
ChainiPRO_00004224624128 – 4237Non-structural protein 9By similarityAdd BLAST110
ChainiPRO_00004224634238 – 4377Non-structural protein 10By similarityAdd BLAST140
ChainiPRO_00004224644378 – 4391Non-structural protein 11By similarityAdd BLAST14

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

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections (‘Function’, ‘PTM / Processing’, ‘Pathology and Biotech’) according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei193 – 194CleavageBy similarity2
Sitei853 – 854Cleavage; by PL-PROBy similarity2
Sitei2740 – 2741Cleavage; by PL-PROBy similarity2
Sitei3247 – 3248Cleavage; by 3CL-PROBy similarity2
Sitei3553 – 3554Cleavage; by 3CL-PROBy similarity2
Sitei3845 – 3846Cleavage; by 3CL-PROBy similarity2
Sitei3928 – 3929Cleavage; by 3CL-PROBy similarity2
Sitei4127 – 4128Cleavage; by 3CL-PROBy similarity2
Sitei4237 – 4238Cleavage; by 3CL-PROBy similarity2
Sitei4377 – 4378Cleavage; by 3CL-PROBy similarity2

Proteomic databases

PRoteomics IDEntifications database

More...PRIDEi		K9N638

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

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

Nsp2 interacts with host PHB and PHB2. 3CL-PRO exists as monomer and homodimer. Nsp4 interacts with PL-PRO and nsp6. Only the homodimer shows catalytic activity. Eight copies of nsp7 and eight copies of nsp8 assemble to form a heterohexadecamer dsRNA-encircling ring structure. Nsp9 is a dimer.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

14391
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		K9N638

Database of comparative protein structure models

More...ModBasei		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		Search...

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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini1110 – 1276MacroPROSITE-ProRule annotationAdd BLAST167
Domaini1552 – 1823Peptidase C16PROSITE-ProRule annotationAdd BLAST272
Domaini3248 – 3553Peptidase C30PROSITE-ProRule annotationAdd BLAST306

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni2040 – 2363HD1Add BLAST324
Regioni2761 – 3171HD2Add BLAST411
Regioni3571 – 3785HD3Add BLAST215

<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 fingeri1672 – 1709C4-typePROSITE-ProRule annotationAdd BLAST38
Zinc fingeri4311 – 4327Add BLAST17
Zinc fingeri4354 – 4367Add 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
3.10.20.350, 1 hit
3.40.220.20, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR032505 Corona_NSP4_C
IPR002589 Macro_dom
IPR032592 NAR_dom
IPR036333 NSP10_sf
IPR024375 Nsp3_coronavir
IPR038400 Nsp3_coronavir_sf
IPR038123 NSP4_C_sf
IPR014828 NSP7
IPR037204 NSP7_sf
IPR014829 NSP8
IPR037230 NSP8_sf
IPR014822 NSP9
IPR036499 NSP9_sf
IPR008740 Peptidase_C30
IPR013016 Peptidase_C30/C16
IPR009003 Peptidase_S1_PA
IPR038083 pp1a/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
PF01661 Macro, 1 hit
PF16251 NAR, 1 hit
PF09401 NSP10, 1 hit
PF08716 nsp7, 1 hit
PF08717 nsp8, 1 hit
PF08710 nsp9, 1 hit
PF05409 Peptidase_C30, 1 hit
PF11633 SUD-M, 1 hit
PF08715 Viral_protease, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

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

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF101816 SSF101816, 1 hit
SSF140367 SSF140367, 1 hit
SSF143076 SSF143076, 1 hit
SSF144246 SSF144246, 1 hit
SSF159936 SSF159936, 1 hit
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, 1 hit

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

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

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

This entry describes 2 <p>This subsection of the ‘Sequence’ section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by ribosomal frameshifting. AlignAdd to basket
Isoform Replicase polyprotein 1a (identifier: K9N638-1) [UniParc]FASTAAdd to basket
Also known as: pp1a, ORF1a polyprotein

This isoform has been chosen as the 'canonical' 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
MSFVAGVTAQ GARGTYRAAL NSEKHQDHVS LTVPLCGSGN LVEKLSPWFM 
        60         70         80         90        100
DGENAYEVVK AMLLKKEPLL YVPIRLAGHT RHLPGPRVYL VERLIACENP 
       110        120        130        140        150
FMVNQLAYSS SANGSLVGTT LQGKPIGMFF PYDIELVTGK QNILLRKYGR 
       160        170        180        190        200
GGYHYTPFHY ERDNTSCPEW MDDFEADPKG KYAQNLLKKL IGGDVTPVDQ 
       210        220        230        240        250
YMCGVDGKPI SAYAFLMAKD GITKLADVEA DVAARADDEG FITLKNNLYR 
       260        270        280        290        300
LVWHVERKDV PYPKQSIFTI NSVVQKDGVE NTPPHYFTLG CKILTLTPRN 
       310        320        330        340        350
KWSGVSDLSL KQKLLYTFYG KESLENPTYI YHSAFIECGS CGNDSWLTGN 
       360        370        380        390        400
AIQGFACGCG ASYTANDVEV QSSGMIKPNA LLCATCPFAK GDSCSSNCKH 
       410        420        430        440        450
SVAQLVSYLS ERCNVIADSK SFTLIFGGVA YAYFGCEEGT MYFVPRAKSV 
       460        470        480        490        500
VSRIGDSIFT GCTGSWNKVT QIANMFLEQT QHSLNFVGEF VVNDVVLAIL 
       510        520        530        540        550
SGTTTNVDKI RQLLKGVTLD KLRDYLADYD VAVTAGPFMD NAINVGGTGL 
       560        570        580        590        600
QYAAITAPYV VLTGLGESFK KVATIPYKVC NSVKDTLTYY AHSVLYRVFP 
       610        620        630        640        650
YDMDSGVSSF SELLFDCVDL SVASTYFLVR LLQDKTGDFM STIITSCQTA 
       660        670        680        690        700
VSKLLDTCFE ATEATFNFLL DLAGLFRIFL RNAYVYTSQG FVVVNGKVST 
       710        720        730        740        750
LVKQVLDLLN KGMQLLHTKV SWAGSNISAV IYSGRESLIF PSGTYYCVTT 
       760        770        780        790        800
KAKSVQQDLD VILPGEFSKK QLGLLQPTDN STTVSVTVSS NMVETVVGQL 
       810        820        830        840        850
EQTNMHSPDV IVGDYVIISE KLFVRSKEED GFAFYPACTN GHAVPTLFRL 
       860        870        880        890        900
KGGAPVKKVA FGGDQVHEVA AVRSVTVEYN IHAVLDTLLA SSSLRTFVVD 
       910        920        930        940        950
KSLSIEEFAD VVKEQVSDLL VKLLRGMPIP DFDLDDFIDA PCYCFNAEGD 
       960        970        980        990       1000
ASWSSTMIFS LHPVECDEEC SEVEASDLEE GESECISETS TEQVDVSHEI 
      1010       1020       1030       1040       1050
SDDEWAAAVD EAFPLDEAED VTESVQEEAQ PVEVPVEDIA QVVIADTLQE 
      1060       1070       1080       1090       1100
TPVVSDTVEV PPQVVKLPSE PQTIQPEVKE VAPVYEADTE QTQSVTVKPK 
      1110       1120       1130       1140       1150
RLRKKRNVDP LSNFEHKVIT ECVTIVLGDA IQVAKCYGES VLVNAANTHL 
      1160       1170       1180       1190       1200
KHGGGIAGAI NAASKGAVQK ESDEYILAKG PLQVGDSVLL QGHSLAKNIL 
      1210       1220       1230       1240       1250
HVVGPDARAK QDVSLLSKCY KAMNAYPLVV TPLVSAGIFG VKPAVSFDYL 
      1260       1270       1280       1290       1300
IREAKTRVLV VVNSQDVYKS LTIVDIPQSL TFSYDGLRGA IRKAKDYGFT 
      1310       1320       1330       1340       1350
VFVCTDNSAN TKVLRNKGVD YTKKFLTVDG VQYYCYTSKD TLDDILQQAN 
      1360       1370       1380       1390       1400
KSVGIISMPL GYVSHGLDLI QAGSVVRRVN VPYVCLLANK EQEAILMSED 
      1410       1420       1430       1440       1450
VKLNPSEDFI KHVRTNGGYN SWHLVEGELL VQDLRLNKLL HWSDQTICYK 
      1460       1470       1480       1490       1500
DSVFYVVKNS TAFPFETLSA CRAYLDSRTT QQLTIEVLVT VDGVNFRTVV 
      1510       1520       1530       1540       1550
LNNKNTYRSQ LGCVFFNGAD ISDTIPDEKQ NGHSLYLADN LTADETKALK 
      1560       1570       1580       1590       1600
ELYGPVDPTF LHRFYSLKAA VHKWKMVVCD KVRSLKLSDN NCYLNAVIMT 
      1610       1620       1630       1640       1650
LDLLKDIKFV IPALQHAFMK HKGGDSTDFI ALIMAYGNCT FGAPDDASRL 
      1660       1670       1680       1690       1700
LHTVLAKAEL CCSARMVWRE WCNVCGIKDV VLQGLKACCY VGVQTVEDLR 
      1710       1720       1730       1740       1750
ARMTYVCQCG GERHRQIVEH TTPWLLLSGT PNEKLVTTST APDFVAFNVF 
      1760       1770       1780       1790       1800
QGIETAVGHY VHARLKGGLI LKFDSGTVSK TSDWKCKVTD VLFPGQKYSS 
      1810       1820       1830       1840       1850
DCNVVRYSLD GNFRTEVDPD LSAFYVKDGK YFTSEPPVTY SPATILAGSV 
      1860       1870       1880       1890       1900
YTNSCLVSSD GQPGGDAISL SFNNLLGFDS SKPVTKKYTY SFLPKEDGDV 
      1910       1920       1930       1940       1950
LLAEFDTYDP IYKNGAMYKG KPILWVNKAS YDTNLNKFNR ASLRQIFDVA 
      1960       1970       1980       1990       2000
PIELENKFTP LSVESTPVEP PTVDVVALQQ EMTIVKCKGL NKPFVKDNVS 
      2010       2020       2030       2040       2050
FVADDSGTPV VEYLSKEDLH TLYVDPKYQV IVLKDNVLSS MLRLHTVESG 
      2060       2070       2080       2090       2100
DINVVAASGS LTRKVKLLFR ASFYFKEFAT RTFTATTAVG SCIKSVVRHL 
      2110       2120       2130       2140       2150
GVTKGILTGC FSFVKMLFML PLAYFSDSKL GTTEVKVSAL KTAGVVTGNV 
      2160       2170       2180       2190       2200
VKQCCTAAVD LSMDKLRRVD WKSTLRLLLM LCTTMVLLSS VYHLYVFNQV 
      2210       2220       2230       2240       2250
LSSDVMFEDA QGLKKFYKEV RAYLGISSAC DGLASAYRAN SFDVPTFCAN 
      2260       2270       2280       2290       2300
RSAMCNWCLI SQDSITHYPA LKMVQTHLSH YVLNIDWLWF AFETGLAYML 
      2310       2320       2330       2340       2350
YTSAFNWLLL AGTLHYFFAQ TSIFVDWRSY NYAVSSAFWL FTHIPMAGLV 
      2360       2370       2380       2390       2400
RMYNLLACLW LLRKFYQHVI NGCKDTACLL CYKRNRLTRV EASTVVCGGK 
      2410       2420       2430       2440       2450
RTFYITANGG ISFCRRHNWN CVDCDTAGVG NTFICEEVAN DLTTALRRPI 
      2460       2470       2480       2490       2500
NATDRSHYYV DSVTVKETVV QFNYRRDGQP FYERFPLCAF TNLDKLKFKE 
      2510       2520       2530       2540       2550
VCKTTTGIPE YNFIIYDSSD RGQESLARSA CVYYSQVLCK SILLVDSSLV 
      2560       2570       2580       2590       2600
TSVGDSSEIA TKMFDSFVNS FVSLYNVTRD KLEKLISTAR DGVRRGDNFH 
      2610       2620       2630       2640       2650
SVLTTFIDAA RGPAGVESDV ETNEIVDSVQ YAHKHDIQIT NESYNNYVPS 
      2660       2670       2680       2690       2700
YVKPDSVSTS DLGSLIDCNA ASVNQIVLRN SNGACIWNAA AYMKLSDALK 
      2710       2720       2730       2740       2750
RQIRIACRKC NLAFRLTTSK LRANDNILSV RFTANKIVGG APTWFNALRD 
      2760       2770       2780       2790       2800
FTLKGYVLAT IIVFLCAVLM YLCLPTFSMV PVEFYEDRIL DFKVLDNGII 
      2810       2820       2830       2840       2850
RDVNPDDKCF ANKHRSFTQW YHEHVGGVYD NSITCPLTVA VIAGVAGARI 
      2860       2870       2880       2890       2900
PDVPTTLAWV NNQIIFFVSR VFANTGSVCY TPIDEIPYKS FSDSGCILPS 
      2910       2920       2930       2940       2950
ECTMFRDAEG RMTPYCHDPT VLPGAFAYSQ MRPHVRYDLY DGNMFIKFPE 
      2960       2970       2980       2990       3000
VVFESTLRIT RTLSTQYCRF GSCEYAQEGV CITTNGSWAI FNDHHLNRPG 
      3010       3020       3030       3040       3050
VYCGSDFIDI VRRLAVSLFQ PITYFQLTTS LVLGIGLCAF LTLLFYYINK 
      3060       3070       3080       3090       3100
VKRAFADYTQ CAVIAVVAAV LNSLCICFVA SIPLCIVPYT ALYYYATFYF 
      3110       3120       3130       3140       3150
TNEPAFIMHV SWYIMFGPIV PIWMTCVYTV AMCFRHFFWV LAYFSKKHVE 
      3160       3170       3180       3190       3200
VFTDGKLNCS FQDAASNIFV INKDTYAALR NSLTNDAYSR FLGLFNKYKY 
      3210       3220       3230       3240       3250
FSGAMETAAY REAAACHLAK ALQTYSETGS DLLYQPPNCS ITSGVLQSGL 
      3260       3270       3280       3290       3300
VKMSHPSGDV EACMVQVTCG SMTLNGLWLD NTVWCPRHVM CPADQLSDPN 
      3310       3320       3330       3340       3350
YDALLISMTN HSFSVQKHIG APANLRVVGH AMQGTLLKLT VDVANPSTPA 
      3360       3370       3380       3390       3400
YTFTTVKPGA AFSVLACYNG RPTGTFTVVM RPNYTIKGSF LCGSCGSVGY 
      3410       3420       3430       3440       3450
TKEGSVINFC YMHQMELANG THTGSAFDGT MYGAFMDKQV HQVQLTDKYC 
      3460       3470       3480       3490       3500
SVNVVAWLYA AILNGCAWFV KPNRTSVVSF NEWALANQFT EFVGTQSVDM 
      3510       3520       3530       3540       3550
LAVKTGVAIE QLLYAIQQLY TGFQGKQILG STMLEDEFTP EDVNMQIMGV 
      3560       3570       3580       3590       3600
VMQSGVRKVT YGTAHWLFAT LVSTYVIILQ ATKFTLWNYL FETIPTQLFP 
      3610       3620       3630       3640       3650
LLFVTMAFVM LLVKHKHTFL TLFLLPVAIC LTYANIVYEP TTPISSALIA 
      3660       3670       3680       3690       3700
VANWLAPTNA YMRTTHTDIG VYISMSLVLV IVVKRLYNPS LSNFALALCS 
      3710       3720       3730       3740       3750
GVMWLYTYSI GEASSPIAYL VFVTTLTSDY TITVFVTVNL AKVCTYAIFA 
      3760       3770       3780       3790       3800
YSPQLTLVFP EVKMILLLYT CLGFMCTCYF GVFSLLNLKL RAPMGVYDFK 
      3810       3820       3830       3840       3850
VSTQEFRFMT ANNLTAPRNS WEAMALNFKL IGIGGTPCIK VAAMQSKLTD 
      3860       3870       3880       3890       3900
LKCTSVVLLS VLQQLHLEAN SRAWAFCVKC HNDILAATDP SEAFEKFVSL 
      3910       3920       3930       3940       3950
FATLMTFSGN VDLDALASDI FDTPSVLQAT LSEFSHLATF AELEAAQKAY 
      3960       3970       3980       3990       4000
QEAMDSGDTS PQVLKALQKA VNIAKNAYEK DKAVARKLER MADQAMTSMY 
      4010       4020       4030       4040       4050
KQARAEDKKA KIVSAMQTML FGMIKKLDND VLNGIISNAR NGCIPLSVIP 
      4060       4070       4080       4090       4100
LCASNKLRVV IPDFTVWNQV VTYPSLNYAG ALWDITVINN VDNEIVKSSD 
      4110       4120       4130       4140       4150
VVDSNENLTW PLVLECTRAS TSAVKLQNNE IKPSGLKTMV VSAGQEQTNC 
      4160       4170       4180       4190       4200
NTSSLAYYEP VQGRKMLMAL LSDNAYLKWA RVEGKDGFVS VELQPPCKFL 
      4210       4220       4230       4240       4250
IAGPKGPEIR YLYFVKNLNN LHRGQVLGHI AATVRLQAGS NTEFASNSSV 
      4260       4270       4280       4290       4300
LSLVNFTVDP QKAYLDFVNA GGAPLTNCVK MLTPKTGTGI AISVKPESTA 
      4310       4320       4330       4340       4350
DQETYGGASV CLYCRAHIEH PDVSGVCKYK GKFVQIPAQC VRDPVGFCLS 
      4360       4370       4380       4390 
NTPCNVCQYW IGYGCNCDSL RQAALPQSKD SNFLNESGVL L
Note: Produced by conventional translation.
Length:4,391
Mass (Da):486,059
Last modified:March 6, 2013 - 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:iD0A87AE59773BBB8
GO
Isoform Replicase polyprotein 1ab (identifier: K9N7C7-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab
The sequence of this isoform can be found in the external entry K9N7C7.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.
Length:7,078
Mass (Da):789,563
GO

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
KC164505 Genomic RNA Translation: AFY13305.1

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
KC164505 Genomic RNA Translation: AFY13305.1

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
4R3DX-ray2.82A/B1481-1811[»]
5DUSX-ray1.43A1110-1273[»]
5HIHX-ray1.66A1109-1275[»]
5WKJX-ray2.05A3248-3553[»]
5WKKX-ray1.55A3248-3553[»]
5WKLX-ray1.85A3248-3553[»]
5WKMX-ray2.25A3248-3553[»]
SMRiK9N638
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiK9N638

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

Gene3Di1.10.150.420, 1 hit
1.10.8.370, 1 hit
2.40.10.250, 1 hit
3.10.20.350, 1 hit
3.40.220.20, 1 hit
InterProiView protein in InterPro
IPR032505 Corona_NSP4_C
IPR002589 Macro_dom
IPR032592 NAR_dom
IPR036333 NSP10_sf
IPR024375 Nsp3_coronavir
IPR038400 Nsp3_coronavir_sf
IPR038123 NSP4_C_sf
IPR014828 NSP7
IPR037204 NSP7_sf
IPR014829 NSP8
IPR037230 NSP8_sf
IPR014822 NSP9
IPR036499 NSP9_sf
IPR008740 Peptidase_C30
IPR013016 Peptidase_C30/C16
IPR009003 Peptidase_S1_PA
IPR038083 pp1a/1ab
IPR018995 RNA_synth_NSP10_coronavirus
IPR014827 Viral_protease
PfamiView protein in Pfam
PF16348 Corona_NSP4_C, 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
PF05409 Peptidase_C30, 1 hit
PF11633 SUD-M, 1 hit
PF08715 Viral_protease, 1 hit
SMARTiView protein in SMART
SM00506 A1pp, 1 hit
SUPFAMiSSF101816 SSF101816, 1 hit
SSF140367 SSF140367, 1 hit
SSF143076 SSF143076, 1 hit
SSF144246 SSF144246, 1 hit
SSF159936 SSF159936, 1 hit
SSF50494 SSF50494, 1 hit
PROSITEiView protein in PROSITE
PS51442 M_PRO, 1 hit
PS51154 MACRO, 1 hit
PS51124 PEPTIDASE_C16, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		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_CVEMC
<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: K9N638
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 29, 2013
Last sequence update: March 6, 2013
Last modified: June 5, 2019
This is version 40 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, Complete proteome, 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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