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UniProtKB - P0C6V3 (R1A_IBVB)

Entry version 70 (02 Dec 2020)
Sequence version 1 (10 Jun 2008)
Previous versions | rss
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Protein

Replicase polyprotein 1a

Gene

1a

Organism
Avian infectious bronchitis virus (strain Beaudette) (IBV)
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 (PL-PRO) is responsible for the cleavages located at the N-terminus of replicase polyprotein. Activity of PL-PRO is dependent on zinc (By similarity).By similarity
Responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK.PROSITE-ProRule annotation
The peptide p16 might be involved in the EGF signaling pathway.
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

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 sitei1274For PL-PRO activityPROSITE-ProRule annotation1
Active sitei1437For PL-PRO activityPROSITE-ProRule annotation1
Active sitei2820For 3CL-PRO activity1
Active sitei2922For 3CL-PRO activity1

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 fingeri1353 – 1390C4-typePROSITE-ProRule annotationAdd BLAST38
Zinc fingeri3858 – 3878By similarityAdd BLAST21
Zinc fingeri3904 – 3917By similarityAdd BLAST14

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionHydrolase, Protease, RNA-binding, Thiol protease
Biological processActivation of host autophagy by virus, Host-virus interaction
LigandMetal-binding, Zinc

Enzyme and pathway databases

BRENDA Comprehensive Enzyme Information System

More...BRENDAi		3.4.22.B14, 8728

<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 10 chains:
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p87
Non-structural protein 3 (EC:3.4.22.-)
Short name:
nsp3
Alternative name(s):
Papain-like proteinase
Short name:
PL-PRO
p195
Non-structural protein 4
Short name:
nsp4
Alternative name(s):
Peptide HD2
p41
3C-like proteinase (EC:3.4.22.-)
Short name:
3CL-PRO
Short name:
3CLp
Alternative name(s):
M-PRO
nsp5
p33
Non-structural protein 6
Short name:
nsp6
Alternative name(s):
p34
Non-structural protein 7
Short name:
nsp7
Alternative name(s):
p9
Non-structural protein 8
Short name:
nsp8
Alternative name(s):
p24
Non-structural protein 9
Short name:
nsp9
Alternative name(s):
p10
Non-structural protein 10
Short name:
nsp10
Alternative name(s):
Growth factor-like peptide
Short name:
GFL
p16
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>OrganismiAvian infectious bronchitis virus (strain Beaudette) (IBV)
<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 identifieri11122 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiViruses › Riboviria › Orthornavirae › Pisuviricota › Pisoniviricetes › Nidovirales › Cornidovirineae › Coronaviridae › Orthocoronavirinae › Gammacoronavirus › Igacovirus ›
<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 hostiGallus gallus (Chicken) [TaxID: 9031]
<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
  • UP000006717 <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>Transmembranei1751 – 1771HelicalSequence analysisAdd BLAST21
Transmembranei1844 – 1864HelicalSequence analysisAdd BLAST21
Transmembranei1887 – 1907HelicalSequence analysisAdd BLAST21
Transmembranei2281 – 2301HelicalSequence analysisAdd BLAST21
Transmembranei2560 – 2580HelicalSequence analysisAdd BLAST21
Transmembranei2589 – 2609HelicalSequence analysisAdd BLAST21
Transmembranei2612 – 2632HelicalSequence analysisAdd BLAST21
Transmembranei2644 – 2664HelicalSequence analysisAdd BLAST21
Transmembranei3101 – 3121HelicalSequence analysisAdd BLAST21
Transmembranei3122 – 3142HelicalSequence analysisAdd BLAST21
Transmembranei3152 – 3172HelicalSequence analysisAdd BLAST21
Transmembranei3189 – 3209HelicalSequence analysisAdd BLAST21
Transmembranei3220 – 3240HelicalSequence analysisAdd BLAST21
Transmembranei3258 – 3278HelicalSequence analysisAdd BLAST21
Transmembranei3297 – 3317HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

Complete GO annotation on QuickGO ...

Keywords - Cellular componenti

Host cytoplasm, Host membrane, Membrane

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

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology%5Fand%5Fbiotech%5Fsection">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi673G → A: No processing between p87 and p195. 1 Publication1
Mutagenesisi676T → S: No effect. 1 Publication1
Mutagenesisi1274C → S: Complete loss of PL-PRO activity. 1 Publication1
Mutagenesisi1437H → K: Complete loss of PL-PRO activity. 1 Publication1
Mutagenesisi2264A → N: Almost no processing between p195 and peptide HD2. 1 Publication1
Mutagenesisi2265 – 2266Missing : No processing between p195 and peptide HD2. 1 Publication2
Mutagenesisi2265G → A: No effect. 1 Publication1
Mutagenesisi2265G → N: Almost no processing between p195 and peptide HD2. 1 Publication1
Mutagenesisi2266G → N: No effect. 1 Publication1
Mutagenesisi2820H → K or G: Complete loss of 3CL-PRO activity. 1 Publication1
Mutagenesisi2841E → Q: No effect. 1 Publication1
Mutagenesisi2843E → D, N or Q: No effect. 1 Publication1
Mutagenesisi2922C → A: Complete loss of 3CL-PRO activity. 1 Publication1
Mutagenesisi2922C → S: Partial loss of 3CL-PRO activity. 1 Publication1
Mutagenesisi3086Q → E: No processing between 3CL-PRO and p34. 1 Publication1
Mutagenesisi3365Q → E: No effect. 1 Publication1
Mutagenesisi3379Q → E: No processing between p34 and p9. 1 Publication1
Mutagenesisi3462Q → E: No processing between p9 and p24. 1 Publication1
Mutagenesisi3672Q → E: No processing between p24 and p10. 2 Publications1
Mutagenesisi3783Q → E: No processing between p10 and p16. 2 Publications1
Mutagenesisi3928Q → E: No processing between p16 and p100. 1 Publication1

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00003383141 – 3951Replicase polyprotein 1aAdd BLAST3951
ChainiPRO_00003383151 – 673Non-structural protein 2Add BLAST673
ChainiPRO_0000338316674 – 2265Non-structural protein 3Add BLAST1592
ChainiPRO_00003383172266 – 2779Non-structural protein 4Add BLAST514
ChainiPRO_00003383182780 – 30863C-like proteinaseAdd BLAST307
ChainiPRO_00003383193087 – 3379Non-structural protein 6Add BLAST293
ChainiPRO_00003383203380 – 3462Non-structural protein 7Add BLAST83
ChainiPRO_00003383213463 – 3672Non-structural protein 8Add BLAST210
ChainiPRO_00003383223673 – 3783Non-structural protein 9Add BLAST111
ChainiPRO_00003383233784 – 3928Non-structural protein 10Add BLAST145
ChainiPRO_00003383243929 – 3951Non-structural protein 11Sequence analysisAdd BLAST23

<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
P41 is N-glycosylated.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections ('Function', 'PTM / Processing', 'Pathology and Biotech') according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei673 – 674Cleavage; by PL-PRO2
Sitei2265 – 2266Cleavage; by PL-PRO2
Sitei2779 – 2780Cleavage; by 3CL-PRO2
Sitei3086 – 3087Cleavage; by 3CL-PRO2
Sitei3379 – 3380Cleavage; by 3CL-PRO2
Sitei3462 – 3463Cleavage; by 3CL-PRO2
Sitei3672 – 3673Cleavage; by 3CL-PRO2
Sitei3783 – 3784Cleavage; by 3CL-PRO2
Sitei3928 – 3929Cleavage; by 3CL-PRO2

<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. The three peptides nsp2, nsp3 and nsp4 may form a complex. Nsp9 is a dimer. Eight copies of nsp7 and eight copies of nsp8 assemble to form a heterohexadecamer. Nsp10 forms a dodecamer (By similarity).

By similarity

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction%5Fsection">Interaction</a>' section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="https://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated at every <a href="http://www.uniprot.org/help/synchronization">UniProt release</a>.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

GO - Molecular functioni

Complete GO annotation on QuickGO ...

<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		P0C6V3

Database of comparative protein structure models

More...ModBasei		Search...

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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%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>Domaini1003 – 1179MacroPROSITE-ProRule annotationAdd BLAST177
Domaini1236 – 1497Peptidase C16PROSITE-ProRule annotationAdd BLAST262
Domaini2780 – 3086Peptidase C30PROSITE-ProRule annotationAdd BLAST307

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>Regioni1721 – 1907HD1Add BLAST187
Regioni2281 – 2664HD2Add BLAST384
Regioni3101 – 3317HD3Add BLAST217

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 biasi226 – 229Poly-Val4
Compositional biasi2570 – 2573Poly-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

Belongs to the coronaviruses polyprotein 1ab family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri1353 – 1390C4-typePROSITE-ProRule annotationAdd BLAST38
Zinc fingeri3858 – 3878By similarityAdd BLAST21
Zinc fingeri3904 – 3917By 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, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR043611, CoV_NSP3_C
IPR043612, CoV_NSP4_N
IPR043610, CoV_NSP6
IPR002589, Macro_dom
IPR043472, Macro_dom-like
IPR036333, NSP10_sf_CoV
IPR040795, Nsp1a_N
IPR032505, NSP4_C_CoV
IPR038123, NSP4_C_sf_CoV
IPR014828, NSP7_CoV
IPR037204, NSP7_sf_CoV
IPR014829, NSP8_CoV-like
IPR037230, NSP8_sf_CoV
IPR014822, NSP9_CoV
IPR036499, NSP9_sf_CoV
IPR013016, Peptidase_C16_CoV
IPR008740, Peptidase_C30_CoV
IPR043477, Peptidase_C30_dom3_CoV
IPR009003, Peptidase_S1_PA
IPR043504, Peptidase_S1_PA_chymotrypsin
IPR043503, PLpro_palm_finger_dom_CoV
IPR018995, RNA_synth_NSP10_CoV

Pfam protein domain database

More...Pfami		View protein in Pfam
PF09401, CoV_NSP10, 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, 1 hit
PF01661, Macro, 1 hit
PF17896, Nsp2a_N, 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
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, 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%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: P0C6V3-1) [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
MASSLKQGVS PKPRDVILVS KDIPEQLCDA LFFYTSHNPK DYADAFAVRQ 
        60         70         80         90        100
KFDRSLQTGK QFKFETVCGL FLLKGVDKIT PGVPAKVLKA TSKLADLEDI 
       110        120        130        140        150
FGVSPLARKY RELLKTACQW SLTVEALDVR AQTLDEIFDP TEILWLQVAA 
       160        170        180        190        200
KIHVSSMAMR RLVGEVTAKV MDALGSNLSA LFQIVKQQIA RIFQKALAIF 
       210        220        230        240        250
ENVNELPQRI AALKMAFAKC ARSITVVVVE RTLVVKEFAG TCLASINGAV 
       260        270        280        290        300
AKFFEELPNG FMGSKIFTTL AFFKEAAVRV VENIPNAPRG TKGFEVVGNA 
       310        320        330        340        350
KGTQVVVRGM RNDLTLLDQK ADIPVEPEGW SAILDGHLCY VFRSGDRFYA 
       360        370        380        390        400
APLSGNFALS DVHCCERVVC LSDGVTPEIN DGLILAAIYS SFSVSELVTA 
       410        420        430        440        450
LKKGEPFKFL GHKFVYAKDA AVSFTLAKAA TIADVLRLFQ SARVIAEDVW 
       460        470        480        490        500
SSFTEKSFEF WKLAYGKVRN LEEFVKTYVC KAQMSIVILA AVLGEDIWHL 
       510        520        530        540        550
VSQVIYKLGV LFTKVVDFCD KHWKGFCVQL KRAKLIVTET FCVLKGVAQH 
       560        570        580        590        600
CFQLLLDAIH SLYKSFKKCA LGRIHGDLLF WKGGVHKIVQ DGDEIWFDAI 
       610        620        630        640        650
DSVDVEDLGV VQEKSIDFEV CDDVTLPENQ PGHMVQIEDD GKNYMFFRFK 
       660        670        680        690        700
KDENIYYTPM SQLGAINVVC KAGGKTVTFG ETTVQEIPPP DVVPIKVSIE 
       710        720        730        740        750
CCGEPWNTIF KKAYKEPIEV DTDLTVEQLL SVIYEKMCDD LKLFPEAPEP 
       760        770        780        790        800
PPFENVALVD KNGKDLDCIK SCHLIYRDYE SDDDIEEEDA EECDTDSGEA 
       810        820        830        840        850
EECDTNSECE EEDEDTKVLA LIQDPASIKY PLPLDEDYSV YNGCIVHKDA 
       860        870        880        890        900
LDVVNLPSGE ETFVVNNCFE GAVKPLPQKV VDVLGDWGEA VDAQEQLCQQ 
       910        920        930        940        950
EPLQHTFEEP VENSTGSSKT MTEQVVVEDQ ELPVVEQDQD VVVYTPTDLE 
       960        970        980        990       1000
VAKETAEEVD EFILIFAVPK EEVVSQKDGA QIKQEPIQVV KPQREKKAKK 
      1010       1020       1030       1040       1050
FKVKPATCEK PKFLEYKTCV GDLTVVIAKA LDEFKEFCIV NAANEHMTHG 
      1060       1070       1080       1090       1100
SGVAKAIADF CGLDFVEYCE DYVKKHGPQQ RLVTPSFVKG IQCVNNVVGP 
      1110       1120       1130       1140       1150
RHGDNNLHEK LVAAYKNVLV DGVVNYVVPV LSLGIFGVDF KMSIDAMREA 
      1160       1170       1180       1190       1200
FEGCTIRVLL FSLSQEHIDY FDVTCKQKTI YLTEDGVKYR SIVLKPGDSL 
      1210       1220       1230       1240       1250
GQFGQVYAKN KIVFTADDVE DKEILYVPTT DKSILEYYGL DAQKYVIYLQ 
      1260       1270       1280       1290       1300
TLAQKWNVQY RDNFLILEWR DGNCWISSAI VLLQAAKIRF KGFLTEAWAK 
      1310       1320       1330       1340       1350
LLGGDPTDFV AWCYASCTAK VGDFSDANWL LANLAEHFDA DYTNAFLKKR 
      1360       1370       1380       1390       1400
VSCNCGIKSY ELRGLEACIQ PVRATNLLHF KTQYSNCPTC GANNTDEVIE 
      1410       1420       1430       1440       1450
ASLPYLLLFA TDGPATVDCD EDAVGTVVFV GSTNSGHCYT QAAGQAFDNL 
      1460       1470       1480       1490       1500
AKDRKFGKKS PYITAMYTRF AFKNETSLPV AKQSKGKSKS VKEDVSNLAT 
      1510       1520       1530       1540       1550
SSKASFDNLT DFEQWYDSNI YESLKVQESP DNFDKYVSFT TKEDSKLPLT 
      1560       1570       1580       1590       1600
LKVRGIKSVV DFRSKDGFIY KLTPDTDENS KAPVYYPVLD AISLKAIWVE 
      1610       1620       1630       1640       1650
GNANFVVGHP NYYSKSLHIP TFWENAENFV KMGDKIGGVT MGLWRAEHLN 
      1660       1670       1680       1690       1700
KPNLERIFNI AKKAIVGSSV VTTQCGKLIG KAATFIADKV GGGVVRNITD 
      1710       1720       1730       1740       1750
SIKGLCGITR GHFERKMSPQ FLKTLMFFLF YFLKASVKSV VASYKTVLCK 
      1760       1770       1780       1790       1800
VVLATLLIVW FVYTSNPVMF TGIRVLDFLF EGSLCGPYKD YGKDSFDVLR 
      1810       1820       1830       1840       1850
YCADDFICRV CLHDKDSLHL YKHAYSVEQV YKDAASGFIF NWNWLYLVFL 
      1860       1870       1880       1890       1900
ILFVKPVAGF VIICYCVKYL VLNSTVLQTG VCFLDWFVQT VFSHFNFMGA 
      1910       1920       1930       1940       1950
GFYFWLFYKI YIQVHHILYC KDVTCEVCKR VARSNRQEVS VVVGGRKQIV 
      1960       1970       1980       1990       2000
HVYTNSGYNF CKRHNWYCRN CDDYGHQNTF MSPEVAGELS EKLKRHVKPT 
      2010       2020       2030       2040       2050
AYAYHVVDEA CLVDDFVNLK YKAATPGKDS ASSAVKCFSV TDFLKKAVFL 
      2060       2070       2080       2090       2100
KEALKCEQIS NDGFIVCNTQ SAHALEEAKN AAIYYAQYLC KPILILDQAL 
      2110       2120       2130       2140       2150
YEQLVVEPVS KSVIDKVCSI LSSIISVDTA ALNYKAGTLR DALLSITKDE 
      2160       2170       2180       2190       2200
EAVDMAIFCH NHDVDYTGDG FTNVIPSYGI DTGKLTPRDR GFLINADASI 
      2210       2220       2230       2240       2250
ANLRVKNAPP VVWKFSELIK LSDSCLKYLI SATVKSGVRF FITKSGAKQV 
      2260       2270       2280       2290       2300
IACHTQKLLV EKKAGGIVSG TFKCFKSYFK WLLIFYILFT ACCSGYYYME 
      2310       2320       2330       2340       2350
VSKSFVHPMY DVNSTLHVEG FKVIDKGVLR EIVPEDTCFS NKFVNFDAFW 
      2360       2370       2380       2390       2400
GRPYDNSRNC PIVTAVIDGD GTVATGVPGF VSWVMDGVMF IHMTQTERKP 
      2410       2420       2430       2440       2450
WYIPTWFNRE IVGYTQDSII TEGSFYTSIA LFSARCLYLT ASNTPQLYCF 
      2460       2470       2480       2490       2500
NGDNDAPGAL PFGSIIPHRV YFQPNGVRLI VPQQILHTPY VVKFVSDSYC 
      2510       2520       2530       2540       2550
RGSVCEYTRP GYCVSLNPQW VLFNDEYTSK PGVFCGSTVR ELMFSMVSTF 
      2560       2570       2580       2590       2600
FTGVNPNIYM QLATMFLILV VVVLIFAMVI KFQGVFKAYA TTVFITMLVW 
      2610       2620       2630       2640       2650
VINAFILCVH SYNSVLAVIL LVLYCYASLV TSRNTVIIMH CWLVFTFGLI 
      2660       2670       2680       2690       2700
VPTWLACCYL GFIIYMYTPL FLWCYGTTKN TRKLYDGNEF VGNYDLAAKS 
      2710       2720       2730       2740       2750
TFVIRGSEFV KLTNEIGDKF EAYLSAYARL KYYSGTGSEQ DYLQACRAWL 
      2760       2770       2780       2790       2800
AYALDQYRNS GVEIVYTPPR YSIGVSRLQS GFKKLVSPSS AVEKCIVSVS 
      2810       2820       2830       2840       2850
YRGNNLNGLW LGDTIYCPRH VLGKFSGDQW NDVLNLANNH EFEVTTQHGV 
      2860       2870       2880       2890       2900
TLNVVSRRLK GAVLILQTAV ANAETPKYKF IKANCGDSFT IACAYGGTVV 
      2910       2920       2930       2940       2950
GLYPVTMRSN GTIRASFLAG ACGSVGFNIE KGVVNFFYMH HLELPNALHT 
      2960       2970       2980       2990       3000
GTDLMGEFYG GYVDEEVAQR VPPDNLVTNN IVAWLYAAII SVKESSFSLP 
      3010       3020       3030       3040       3050
KWLESTTVSV DDYNKWAGDN GFTPFSTSTA ITKLSAITGV DVCKLLRTIM 
      3060       3070       3080       3090       3100
VKNSQWGGDP ILGQYNFEDE LTPESVFNQI GGVRLQSSFV RKATSWFWSR 
      3110       3120       3130       3140       3150
CVLACFLFVL CAIVLFTAVP LKFYVYAAVI LLMAVLFISF TVKHVMAYMD 
      3160       3170       3180       3190       3200
TFLLPTLITV IIGVCAEVPF IYNTLISQVV IFLSQWYDPV VFDTMVPWMF 
      3210       3220       3230       3240       3250
LPLVLYTAFK CVQGCYMNSF NTSLLMLYQF VKLGFVIYTS SNTLTAYTEG 
      3260       3270       3280       3290       3300
NWELFFELVH TTVLANVSSN SLIGLFVFKC AKWMLYYCNA TYLNNYVLMA 
      3310       3320       3330       3340       3350
VMVNCIGWLC TCYFGLYWWV NKVFGLTLGK YNFKVSVDQY RYMCLHKINP 
      3360       3370       3380       3390       3400
PKTVWEVFST NILIQGIGGD RVLPIATVQA KLSDVKCTTV VLMQLLTKLN 
      3410       3420       3430       3440       3450
VEANSKMHVY LVELHNKILA SDDVGECMDN LLGMLITLFC IDSTIDLSEY 
      3460       3470       3480       3490       3500
CDDILKRSTV LQSVTQEFSH IPSYAEYERA KNLYEKVLVD SKNGGVTQQE 
      3510       3520       3530       3540       3550
LAAYRKAANI AKSVFDRDLA VQKKLDSMAE RAMTTMYKEA RVTDRRAKLV 
      3560       3570       3580       3590       3600
SSLHALLFSM LKKIDSEKLN VLFDQASSGV VPLATVPIVC SNKLTLVIPD 
      3610       3620       3630       3640       3650
PETWVKCVEG VHVTYSTVVW NIDTVIDADG TELHPTSTGS GLTYCISGAN 
      3660       3670       3680       3690       3700
IAWPLKVNLT RNGHNKVDVV LQNNELMPHG VKTKACVAGV DQAHCSVESK 
      3710       3720       3730       3740       3750
CYYTNISGNS VVAAITSSNP NLKVASFLNE AGNQIYVDLD PPCKFGMKVG 
      3760       3770       3780       3790       3800
VKVEVVYLYF IKNTRSIVRG MVLGAISNVV VLQSKGHETE EVDAVGILSL 
      3810       3820       3830       3840       3850
CSFAVDPADT YCKYVAAGNQ PLGNCVKMLT VHNGSGFAIT SKPSPTPDQD 
      3860       3870       3880       3890       3900
SYGGASVCLY CRAHIAHPGS VGNLDGRCQF KGSFVQIPTT EKDPVGFCLR 
      3910       3920       3930       3940       3950
NKVCTVCQCW IGYGCQCDSL RQPKSSVQSV AGASDFDKNY LNGYGVAVRL 

G
Note: Produced by conventional translation.
Length:3,951
Mass (Da):441,126
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:i9B8B2E7E2545F50C
GO
Isoform Replicase polyprotein 1ab (identifier: P0C6Y1-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab
The sequence of this isoform can be found in the external entry P0C6Y1.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:6,629
Mass (Da):744,540
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes natural variant(s) of the protein sequence.<p><a href='/help/variant' target='_top'>More...</a></p>Natural varianti105P → S in strain: Isolate Vero cell-adapted p65. 1
Natural varianti919K → E in strain: Isolate Vero cell-adapted p65. 1
Natural varianti932L → I in strain: Isolate Vero cell-adapted p65. 1
Natural varianti948D → G in strain: Isolate Vero cell-adapted p65. 1
Natural varianti967A → D in strain: Isolate Vero cell-adapted p65. 1
Natural varianti1133L → S in strain: Isolate Vero cell-adapted p65. 1
Natural varianti1388P → S in strain: Isolate Vero cell-adapted p65. 1
Natural varianti1753L → F in strain: Isolate Vero cell-adapted p65. 1
Natural varianti2561Q → H in strain: Isolate Vero cell-adapted p65. 1
Natural varianti3058Missing in strain: Isolate Vero cell-adapted p65. 1
Natural varianti3242N → S in strain: Isolate Vero cell-adapted p65. 1
Natural varianti3409V → A in strain: Isolate Vero cell-adapted p65. 1
Natural varianti3418I → T in strain: Isolate Vero cell-adapted p65. 1
Natural varianti3471 – 3472IP → MT in strain: Isolate Vero cell-adapted p65. 2
Natural varianti3751V → D in strain: Isolate Vero cell-adapted p65. 1
Natural varianti3870S → G in strain: Isolate Vero cell-adapted p65. 1
Natural varianti3935D → G in strain: Isolate Vero cell-adapted p65. 1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
M94356 Genomic RNA Translation: AAA46223.1
M95169 Genomic RNA Translation: AAA70233.1
DQ001339 Genomic RNA Translation: AAY24431.1

Protein sequence database of the Protein Information Resource

More...PIRi		A33094, VFIHB1
B33094, VFIHB2

NCBI Reference Sequences

More...RefSeqi		NP_040829.1, NC_001451.1

Genome annotation databases

Database of genes from NCBI RefSeq genomes

More...GeneIDi		1489740

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
M94356 Genomic RNA Translation: AAA46223.1
M95169 Genomic RNA Translation: AAA70233.1
DQ001339 Genomic RNA Translation: AAY24431.1
PIRiA33094, VFIHB1
B33094, VFIHB2
RefSeqiNP_040829.1, NC_001451.1

3D structure databases

SMRiP0C6V3
ModBaseiSearch...

Genome annotation databases

GeneIDi1489740

Enzyme and pathway databases

BRENDAi3.4.22.B14, 8728

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, 1 hit
InterProiView protein in InterPro
IPR043611, CoV_NSP3_C
IPR043612, CoV_NSP4_N
IPR043610, CoV_NSP6
IPR002589, Macro_dom
IPR043472, Macro_dom-like
IPR036333, NSP10_sf_CoV
IPR040795, Nsp1a_N
IPR032505, NSP4_C_CoV
IPR038123, NSP4_C_sf_CoV
IPR014828, NSP7_CoV
IPR037204, NSP7_sf_CoV
IPR014829, NSP8_CoV-like
IPR037230, NSP8_sf_CoV
IPR014822, NSP9_CoV
IPR036499, NSP9_sf_CoV
IPR013016, Peptidase_C16_CoV
IPR008740, Peptidase_C30_CoV
IPR043477, Peptidase_C30_dom3_CoV
IPR009003, Peptidase_S1_PA
IPR043504, Peptidase_S1_PA_chymotrypsin
IPR043503, PLpro_palm_finger_dom_CoV
IPR018995, RNA_synth_NSP10_CoV
PfamiView protein in Pfam
PF09401, CoV_NSP10, 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, 1 hit
PF01661, Macro, 1 hit
PF17896, Nsp2a_N, 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
SSF52949, SSF52949, 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...

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_IBVB
<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: P0C6V3
Secondary accession number(s): P27920
<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 70 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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