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UniProtKB - P0C6T4 (R1A_BCHK4)

Entry version 86 (17 Jun 2020)
Sequence version 1 (10 Jun 2008)
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Protein

Replicase polyprotein 1a

Gene

1a

Organism
Bat coronavirus HKU4 (BtCoV) (BtCoV/HKU4/2004)
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. In addition, PL-PRO possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF-3 (By similarity).By similarity
Responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK. Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function (By similarity).PROSITE-ProRule annotation
Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter.By similarity
Nsp9 is a ssRNA-binding protein.By similarity
binds to the 40S ribosomal subunit and inhibits host translation. The nsp1-40S ribosome complex further induces an endonucleolytic cleavage near the 5'UTR of host mRNAs, targeting them for degradation. By suppressing host gene expression, nsp1 facilitates efficient viral gene expression in infected cells and evasion from host immune response (By similarity).By similarity

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei1634For PL-PRO activityPROSITE-ProRule annotation1
Active sitei1800For PL-PRO activityPROSITE-ProRule annotation1
Active sitei3332For 3CL-PRO activityPROSITE-ProRule annotation1
Active sitei3439For 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 fingeri1714 – 1751C4-typePROSITE-ProRule annotationAdd BLAST38
Zinc fingeri4355 – 4371By similarityAdd BLAST17
Zinc fingeri4397 – 4410By 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, Decay of host mRNAs by virus, Eukaryotic host gene expression shutoff by virus, Eukaryotic host translation shutoff by virus, Host gene expression shutoff by virus, Host mRNA suppression by virus, Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host interferon signaling pathway by virus, Inhibition of host IRF3 by virus, Inhibition of host ISG15 by virus, Inhibition of host RLR pathway by virus, Modulation of host ubiquitin pathway by viral deubiquitinase, Modulation of host ubiquitin pathway by virus, Ubl conjugation pathway, Viral immunoevasion
LigandMetal-binding, Zinc

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Replicase polyprotein 1a
Short name:
pp1a
Alternative name(s):
ORF1a polyprotein
Cleaved into the following 11 chains:
Non-structural protein 1
Short name:
nsp1
Alternative name(s):
Leader protein
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p65 homolog
Non-structural protein 3 (EC:3.4.19.12, EC:3.4.22.69)
Short name:
nsp3
Alternative name(s):
PL2-PRO
Papain-like proteinase
Short name:
PL-PRO
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%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>OrganismiBat coronavirus HKU4 (BtCoV) (BtCoV/HKU4/2004)
<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 identifieri694007 [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 › Nidovirales › Cornidovirineae › Coronaviridae › Orthocoronavirinae › Betacoronavirus › Merbecovirus
<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 hostiTylonycteris pachypus (Lesser bamboo bat) [TaxID: 258959]
<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
  • UP000006574 <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>Transmembranei2145 – 2165HelicalSequence analysisAdd BLAST21
Transmembranei2222 – 2242HelicalSequence analysisAdd BLAST21
Transmembranei2326 – 2346HelicalSequence analysisAdd BLAST21
Transmembranei2350 – 2370HelicalSequence analysisAdd BLAST21
Transmembranei2375 – 2395HelicalSequence analysisAdd BLAST21
Transmembranei2800 – 2820HelicalSequence analysisAdd BLAST21
Transmembranei3072 – 3092HelicalSequence analysisAdd BLAST21
Transmembranei3105 – 3125HelicalSequence analysisAdd BLAST21
Transmembranei3149 – 3169HelicalSequence analysisAdd BLAST21
Transmembranei3603 – 3623HelicalSequence analysisAdd BLAST21
Transmembranei3637 – 3657HelicalSequence analysisAdd BLAST21
Transmembranei3662 – 3682HelicalSequence analysisAdd BLAST21
Transmembranei3707 – 3727HelicalSequence analysisAdd BLAST21
Transmembranei3735 – 3755HelicalSequence analysisAdd BLAST21
Transmembranei3784 – 3804HelicalSequence analysisAdd BLAST21
Transmembranei3808 – 3828HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

Complete GO annotation on QuickGO ...

Keywords - Cellular componenti

Host cytoplasm, Host membrane, Membrane

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

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00003380861 – 4434Replicase polyprotein 1aAdd BLAST4434
ChainiPRO_00003380871 – 195Non-structural protein 1Sequence analysisAdd BLAST195
ChainiPRO_0000338088196 – 847Non-structural protein 2Sequence analysisAdd BLAST652
ChainiPRO_0000338089848 – 2784Non-structural protein 3Sequence analysisAdd BLAST1937
ChainiPRO_00003380902785 – 3291Non-structural protein 4Sequence analysisAdd BLAST507
ChainiPRO_00003380913292 – 35973C-like proteinaseSequence analysisAdd BLAST306
ChainiPRO_00003380923598 – 3889Non-structural protein 6Sequence analysisAdd BLAST292
ChainiPRO_00003380933890 – 3972Non-structural protein 7Sequence analysisAdd BLAST83
ChainiPRO_00003380943973 – 4171Non-structural protein 8Sequence analysisAdd BLAST199
ChainiPRO_00003380954172 – 4281Non-structural protein 9Sequence analysisAdd BLAST110
ChainiPRO_00003380974281 – 4434Non-structural protein 11Sequence analysisAdd BLAST154
ChainiPRO_00003380964282 – 4420Non-structural protein 10Sequence analysisAdd BLAST139

<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM/processing</a> section describes post-translational modifications (PTMs). This subsection <strong>complements</strong> the information provided at the sequence level or describes modifications for which <strong>position-specific data is not yet available</strong>.<p><a href='/help/post-translational_modification' target='_top'>More...</a></p>Post-translational modificationi

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections ('Function', 'PTM / Processing', 'Pathology and Biotech') according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei195 – 196CleavageSequence analysis2
Sitei847 – 848Cleavage; by PL-PROSequence analysis2
Sitei2784 – 2785Cleavage; by PL-PROSequence analysis2
Sitei3291 – 3292Cleavage; by 3CL-PROSequence analysis2
Sitei3597 – 3598Cleavage; by 3CL-PROSequence analysis2
Sitei3889 – 3890Cleavage; by 3CL-PROSequence analysis2
Sitei3972 – 3973Cleavage; by 3CL-PROSequence analysis2
Sitei4171 – 4172Cleavage; by 3CL-PROSequence analysis2
Sitei4281 – 4282Cleavage; by 3CL-PROSequence analysis2
Sitei4420 – 4421Cleavage; by 3CL-PROSequence analysis2

Proteomic databases

PRoteomics IDEntifications database

More...PRIDEi		P0C6T4

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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

3CL-PRO exists as monomer and homodimer. Eight copies of nsp7 and eight copies of nsp8 assemble to form a heterohexadecamer. Nsp9 is a dimer. Nsp10 forms a dodecamer (By similarity).

By similarity

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

14434
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		P0C6T4

Database of comparative protein structure models

More...ModBasei		Search...

Protein Data Bank in Europe - Knowledge Base

More...PDBe-KBi		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>Domaini1152 – 1321MacroPROSITE-ProRule annotationAdd BLAST170
Domaini1593 – 1864Peptidase C16PROSITE-ProRule annotationAdd BLAST272
Domaini3292 – 3597Peptidase 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>Regioni2112 – 2395HD1By similarityAdd BLAST284
Regioni2800 – 3169HD2By similarityAdd BLAST370
Regioni3603 – 3828HD3By similarityAdd BLAST226

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 biasi960 – 1049Glu-richAdd BLAST90
Compositional biasi4161 – 4166Poly-Ser6

<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.By similarity

<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 fingeri1714 – 1751C4-typePROSITE-ProRule annotationAdd BLAST38
Zinc fingeri4355 – 4371By similarityAdd BLAST17
Zinc fingeri4397 – 4410By similarityAdd BLAST14

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix, Zinc-finger

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		1.10.150.420, 1 hit
1.10.8.1190, 1 hit
1.10.8.370, 1 hit
2.40.10.250, 1 hit
2.40.10.290, 1 hit
3.10.20.350, 1 hit
3.10.20.540, 1 hit
3.40.220.20, 1 hit
3.40.50.11020, 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
IPR042570 NAR_sf
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 R1a/1ab
IPR043177 R1a/1ab_N
IPR043178 R1a/1ab_thumb
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%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: P0C6T4-1) [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
MLSKASVTTQ GARGKYRAEL YNEKRSDHVA CTVPLCDTDD MACKLTPWFE 
        60         70         80         90        100
DGETAFNQVS SILKEKGKIL FVPMHMQRAM KFLPGPRVYL VERLTGGMLS 
       110        120        130        140        150
KHFLVNQLAY KDQVGAAMMR TTLNAKPLGM FFPYDSSLET GEYTFLLRKN 
       160        170        180        190        200
GLGGQLFRER PWDRKETPYV EILDDLEADP TGKYSQNLLK KLIGGDCIPI 
       210        220        230        240        250
DQYMCGKNGK PIADYAKIVA KEGLTTLADI EVDVKSRMDS DRFIVLNKKL 
       260        270        280        290        300
YRVVWNVTRR NVPYPKQTAF TIVSVVQCDD KDSVPEHTFT IGSQILMVSP 
       310        320        330        340        350
LKATNNKNFN LKQRLLYTFY GKDAVQQPGY IYHSAYVDCN ACGRGTWCTG 
       360        370        380        390        400
NAIQGFACDC GANYSANDVD LQSSGLVPRN ALFLANCPCA NNGACSHSAA 
       410        420        430        440        450
QVYNILDGKA CVEVGGKSFT LTFGGVVYAY MGCCDGTMYF VPRAKSCVSR 
       460        470        480        490        500
IGDAIFTGCT GTWDKVVETA NLFLEKAQRS LNFCQQFALT EVVLAILSGT 
       510        520        530        540        550
TSTFEELRDL CHNASYEKVR DHLVNHGFVV TIGDYIRDAI NIGANGVCNA 
       560        570        580        590        600
TINAPFIAFT GLGESFKKVS AIPWKICSNL KSALDYYSSN IMFRVFPYDI 
       610        620        630        640        650
PCDVSNFVEL LLDCGKLTVA TSYFVLRYLD EKFDTVLGTV SSACQTALSS 
       660        670        680        690        700
FLNACVAASR ATAGFINDMF KLFKVLMHKL YVYTSCGYVA VAEHSSKIVQ 
       710        720        730        740        750
QVLDIMSKAM KLLHTNVSWA GTKLSAIIYE GREALLFNSG TYFCLSTKAK 
       760        770        780        790        800
TLQGQMNLVL PGDYNKKTLG ILDPVPNADT IDVNANSTVV DVVHGQLEPT 
       810        820        830        840        850
NEHGPSMIVG NYVLVSDKLF VRTEDEEFYP LCTNGKVVST LFRLKGGMPS 
       860        870        880        890        900
KKVTFGDVNT VEVTAYRSVS ITYDIHPVLD ALLSSSKLAT FTVEKDLLVE 
       910        920        930        940        950
DFVDVIKDEV LTLLTPLLRG YDIDGFDVED FIDVPCYVYN QDGDCAWSSN 
       960        970        980        990       1000
MTFSINPVED VEEVEEFIED DYLSDELPIA DDEEAWARAV EEVMPLDDIL 
      1010       1020       1030       1040       1050
VAEIELEEDP PLETALESVE AEVVETAEAQ EPSVESIDST PSTSTVVGEN 
      1060       1070       1080       1090       1100
DLSVKPMSRV AETDDVLELE TAVVGGPVSD VTAIVTNDIV SVEQAQQCGV 
      1110       1120       1130       1140       1150
SSLPIQDEAS ENQVHQVSDL QGNELLCSET KVEIVQPRQD LKPRRSRKSK 
      1160       1170       1180       1190       1200
VDLSKYKHTV INNSVTLVLG DAIQIASLLP KCILVNAANR HLKHGGGIAG 
      1210       1220       1230       1240       1250
VINKASGGDV QEESDEYISN NGPLHVGDSV LLKGHGLADA ILHVVGPDAR 
      1260       1270       1280       1290       1300
NNEDAALLKR CYKAFNKHTI VVTPLISAGI FSVDPKVSFE YLLANVTTTT 
      1310       1320       1330       1340       1350
YVVVNNEDIY NTLATPSKPD GLVYSFEGWR GTVRTAKNYG FTCFICTEYS 
      1360       1370       1380       1390       1400
ANVKFLRTKG VDTTKKIQTV DGVSYYLYSA RDALTDVIAA ANGCSGICAM 
      1410       1420       1430       1440       1450
PFGYVTHGLD LAQSGNYVRQ VKVPYVCLLA SKEQIPIMNS DVAIQTPETA 
      1460       1470       1480       1490       1500
FINNVTSNGG YHSWHLVSGD LIVKDVCYKK LLHWSGQTIC YADNKFYVVK 
      1510       1520       1530       1540       1550
NDVALPFSDL EACRAYLTSR AAQQVNIEVL VTIDGVNFRT VILNDTTTFR 
      1560       1570       1580       1590       1600
KQLGATFYKG VDISDAFPTV KMGGESLFVA DNLSESEKVV LKEYYGTSDV 
      1610       1620       1630       1640       1650
TFLQRYYSLQ PLVQQWKFVV HDGVKSLKLS NYNCYINATI MMIDMLHDIK 
      1660       1670       1680       1690       1700
FVVPALQNAY LRYKGGDPYD FLALIMAYGD CTFDNPDDEA KLLHTLLAKA 
      1710       1720       1730       1740       1750
ELTVSAKMVW REWCTVCGIR DIEYTGMRAC VYAGVNSMEE LQSVFNETCV 
      1760       1770       1780       1790       1800
CGSVKHRQLV EHSAPWLLVS GLNEVKVSTS TDPIYRAFNV FQGVETSVGH 
      1810       1820       1830       1840       1850
YVHIRVKDGL FYKYDSGSLT KTSDMKCKMT SVWYPTVRYT ADCNVVVYDL 
      1860       1870       1880       1890       1900
DGVTKVEVNP DLSNYYMKDG KYYTSKPTIK YSPATILPGS VYSNSCLVGV 
      1910       1920       1930       1940       1950
DGTPGSDTIS KFFNDLLGFD ETKPISKKLT YSLLPNEDGD VLLSEFSNYN 
      1960       1970       1980       1990       2000
PVYKKGVMLK GKPILWVNNG VCDSALNKPN RASLRQLYDV APIVLDNKYT 
      2010       2020       2030       2040       2050
VLQDNTSQLV EHNVPVVDDV PITTRKLIEV KCKGLNKPFV KGNFSFVNDP 
      2060       2070       2080       2090       2100
NGVTVVDTLG LTELRALYVD INTRYIVLRD NNWSSLFKLH TVESGDLQIV 
      2110       2120       2130       2140       2150
AAGGSVTRRA RVLLGASSLF ASFAKITVTA TTAACKTAGR GFCKFVVNYG 
      2160       2170       2180       2190       2200
VLQNMFVFLK MLFFLPFNYL WPKKQPTVDI GVSGLRTAGI VTTNIVKQCG 
      2210       2220       2230       2240       2250
TAAYYMLLGK FKRVDWKATL RLFLLLCTTI LLLSSIYHLV LFNQVLSSDV 
      2260       2270       2280       2290       2300
MLEDATGILA IYKEVRSYLG IRTLCDGLVV EYRNTSFDVM EFCSNRSVLC 
      2310       2320       2330       2340       2350
QWCLIGQDSL TRYSALQMLQ THITSYVLNI DWIWFALEFF LAYVLYTSSF 
      2360       2370       2380       2390       2400
NVLLLVVTAQ YFFAYTSAFV NWRAYNYIVS GLFFLVTHIP LHGLVRVYNF 
      2410       2420       2430       2440       2450
LACLWFLRKF YSHVINGCKD TACLLCYKRN RLTRVEASTI VCGTKRTFYI 
      2460       2470       2480       2490       2500
AANGGTSYCC KHNWNCVECD TAGVGNTFIC TEVANDLTTT LRRLIKPTDQ 
      2510       2520       2530       2540       2550
SHYYVDSVVV KDAVVELHYN RDGSSCYERY PLCYFTNLEK LKFKEVCKTP 
      2560       2570       2580       2590       2600
TGIPEHNFLI YDTNDRGQEN LARSACVYYS QVLCKPMLLV DVNLVTTVGD 
      2610       2620       2630       2640       2650
SREIAIKMLD SFINSFISLF SVSRDKLEKL INTARDCVRR GDDFQNVLKT 
      2660       2670       2680       2690       2700
FTDAARGHAG VESDVETTMV VDALQYAHKN DIQLTTECYN NYVPGYIKPD 
      2710       2720       2730       2740       2750
SINTLDLGCL IDLKAASVNQ TSMRNANGAC VWNSGDYMKL SDSFKRQIRI 
      2760       2770       2780       2790       2800
ACRKCNIPFR LTTSKLRAAD NILSVKFSAT KIVGGAPSWL LRVRDLTVKG 
      2810       2820       2830       2840       2850
YCILTLFVFT VAVLSWFCLP SYSIATVNFN DDRILTYKVI ENGIVRDIAP 
      2860       2870       2880       2890       2900
NDVCFANKYG HFSKWFNENH GGVYRNSMDC PITIAVIAGV AGARVANVPA 
      2910       2920       2930       2940       2950
NLAWVGKQIV LFVSRVFANT NVCFTPINEI PYDTFSDSGC VLSSECTLFR 
      2960       2970       2980       2990       3000
DAEGNLNPFC YDPTVLPGAS SYADMKPHVR YDMYDSDMYI KFPEVIVEST 
      3010       3020       3030       3040       3050
LRITKTLATQ YCRFGSCEES AAGVCISTNG SWALYNQNYS TRPGIYCGDD 
      3060       3070       3080       3090       3100
YFDIVRRLAI SLFQPVTYFQ LSTSLAMGLV LCVFLTAAFY YINKVKRALA 
      3110       3120       3130       3140       3150
DYTQCAVVAV VAALLNSLCL CFIVANPLLV APYTAMYYYA TFYLTGEPAF 
      3160       3170       3180       3190       3200
IMHISWYVMF GAVVPIWMLA SYTVGVMLRH LFWVLAYFSK KHVDVFTDGK 
      3210       3220       3230       3240       3250
LNCSFQDAAS NIFVIGKDTY VALRNAITQD SFVRYLSLFN KYKYYSGAMD 
      3260       3270       3280       3290       3300
TASYREACAA HLCKALQTYS ETGSDILYQP PNCSVTSSVL QSGLVKMSAP 
      3310       3320       3330       3340       3350
SGAVENCIVQ VTCGSMTLNG LWLDNTVWCP RHIMCPADQL TDPNYDALLI 
      3360       3370       3380       3390       3400
SKTNHSFIVQ KHIGAQANLR VVAHSMVGVL LKLTVDVANP STPAYTFSTV 
      3410       3420       3430       3440       3450
KPGASFSVLA CYNGKPTGVF TVNLRHNSTI KGSFLCGSCG SVGYTENGGV 
      3460       3470       3480       3490       3500
INFVYMHQME LSNGTHTGSS FDGVMYGAFE DKQTHQLQLT DKYCTINVVA 
      3510       3520       3530       3540       3550
WLYAAVLNGC KWFVKPTRVG IVTYNEWALS NQFTEFVGTQ SIDMLAHRTG 
      3560       3570       3580       3590       3600
VSVEQMLAAI QSLHAGFQGK TILGQSTLED EFTPDDVNMQ VMGVVMQSGV 
      3610       3620       3630       3640       3650
KRISYGFIHW LISTFVLAYV SVMQLTKFTM WTYLFETIPT QMTPLLLGFM 
      3660       3670       3680       3690       3700
ACVMFTVKHK HTFMSLFLLP VALCLTYANI VYEPQTLISS TLIAVANWLT 
      3710       3720       3730       3740       3750
PTSVYMRTTH FDFGLYISLS FVLAIIVRRL YRPSMSNLAL ALCSGVMWFY 
      3760       3770       3780       3790       3800
TYVIGDHSSP ITYLMFITTL TSDYTITVFA TVNLAKFISG LVFFYAPHLG 
      3810       3820       3830       3840       3850
FILPEVKLVL LIYLGLGYMC TMYFGVFSLL NLKLRVPLGV YDYSVSTQEF 
      3860       3870       3880       3890       3900
RFLTGNGLHA PRNSWEALIL NFKLLGIGGT PCIKVATVQS KLTDLKCTSV 
      3910       3920       3930       3940       3950
VLLTVLQQLH LESNSKAWSY CVKLHNEILA AVDPTEAFER FVCLFATLMS 
      3960       3970       3980       3990       4000
FSANVDLDAL ANDLFENSSV LQATLTEFSH LATYAELETA QSSYQKALNS 
      4010       4020       4030       4040       4050
GDASPQVLKA LQKAVNVAKN AYEKDKAVAR KLERMAEQAM TSMYKQARAE 
      4060       4070       4080       4090       4100
DKKAKIVSAM QTMLFGMIKK LDNDVLNGVI ANARNGCVPL SIVPLCASNK 
      4110       4120       4130       4140       4150
LRVVIPDISV WNKVVNWPSV SYAGSLWDIT VINNVDNEVV KPTDVVETNE 
      4160       4170       4180       4190       4200
SLTWPLVIEC SRSSSSAVKL QNNEIHPKGL KTMVITAGVD QVNCNSSAVA 
      4210       4220       4230       4240       4250
YYEPVQGHRM VMGLLSENAH LKWAKVEGKD GFINIELQPP CKFLIAGPKG 
      4260       4270       4280       4290       4300
PEIRYLYFVK NLNNLHRGQL LGHIAATVRL QAGANTEFAS NSTVLTLVAF 
      4310       4320       4330       4340       4350
AVDPAKAYLD YVGSGGTPLS NYVKMLAPKT GTGVAISVKP EATADQETYG 
      4360       4370       4380       4390       4400
GASVCLYCRA HIEHPDVSGV CKYKTRFVQI PAHVRDPVGF LLKNVPCNVC 
      4410       4420       4430 
QYWVGYGCNC DALRNNTVPQ SKDTNFLNES GVLV
Note: Produced by conventional translation.
Length:4,434
Mass (Da):491,823
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:i942E92FE623EFBCD
GO
Isoform Replicase polyprotein 1ab (identifier: P0C6W3-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab
The sequence of this isoform can be found in the external entry P0C6W3.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:7,119
Mass (Da):795,200
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
EF065505 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
EF065505 Genomic RNA No translation available.

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
2YNAX-ray1.50A/B3292-3597[»]
2YNBX-ray1.96A/B3292-3597[»]
SMRiP0C6T4
ModBaseiSearch...
PDBe-KBiSearch...

Proteomic databases

PRIDEiP0C6T4

Family and domain databases

Gene3Di1.10.150.420, 1 hit
1.10.8.1190, 1 hit
1.10.8.370, 1 hit
2.40.10.250, 1 hit
2.40.10.290, 1 hit
3.10.20.350, 1 hit
3.10.20.540, 1 hit
3.40.220.20, 1 hit
3.40.50.11020, 1 hit
InterProiView protein in InterPro
IPR032505 Corona_NSP4_C
IPR002589 Macro_dom
IPR032592 NAR_dom
IPR042570 NAR_sf
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 R1a/1ab
IPR043177 R1a/1ab_N
IPR043178 R1a/1ab_thumb
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...

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_BCHK4
<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: P0C6T4
Secondary accession number(s): A3EX93
<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: June 17, 2020
This is version 86 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

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

Keywords - Technical termi

3D-structure, Reference proteome

Documents

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