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UniProtKB - P21405 (RDRP_SCPMV)

Entry version 103 (02 Dec 2020)
Sequence version 2 (28 Jun 2011)
Previous versions | rss
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Protein

Replicase polyprotein P2AB

Gene

ORF2A-2B

Organism
Southern cowpea mosaic virus (SCPMV) (Southern bean mosaic virus (strain cowpea))
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

responsible for cleavages of polyprotein P2A and replicase polyprotein P2AB.
covalently attached to the 5' extremity of the genomic and subgenomic RNAs. It may serve as a primer for the replicase.
replicates the viral genome.PROSITE-ProRule annotation

<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

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 sitei181For protease activityPROSITE-ProRule annotation1
Active sitei216For protease activityPROSITE-ProRule annotation1
Active sitei284For protease activityPROSITE-ProRule annotation1

<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, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Serine protease, Transferase
Biological processViral RNA replication
LigandNucleotide-binding

<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 P2AB
Cleaved into the following 4 chains:
N-terminal protein
Serine protease (EC:3.4.21.-)
VPg
RNA-directed RNA polymerase (EC:2.7.7.48)
Alternative name(s):
RdRp
<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:ORF2A-2B
<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>OrganismiSouthern cowpea mosaic virus (SCPMV) (Southern bean mosaic virus (strain cowpea))
<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 identifieri196398 [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 › Sobelivirales › Solemoviridae › Sobemovirus
<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 hostiGlycine max (Soybean) (Glycine hispida) [TaxID: 3847]
Phaseolus vulgaris (Kidney bean) (French bean) [TaxID: 3885]
Vigna mungo (Black gram) (Phaseolus mungo) [TaxID: 3915]
Vigna unguiculata (Cowpea) [TaxID: 3917]
<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
  • UP000008033 <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

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>Transmembranei7 – 27HelicalSequence analysisAdd BLAST21
Transmembranei37 – 57HelicalSequence analysisAdd BLAST21
Transmembranei77 – 94HelicalSequence analysisAdd BLAST18

GO - Cellular componenti

Complete GO annotation on QuickGO ...

Keywords - Cellular componenti

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_00002224961 – 956Replicase polyprotein P2ABAdd BLAST956
ChainiPRO_00004098431 – 132N-terminal proteinSequence analysisAdd BLAST132
ChainiPRO_0000409844133 – 325Serine proteaseSequence analysisAdd BLAST193
ChainiPRO_0000409845326 – 402VPgSequence analysisAdd BLAST77
ChainiPRO_0000409846403 – 956RNA-directed RNA polymeraseSequence analysisAdd BLAST554

<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

The polyprotein is proteolytically cleaved into several chains by the viral protease.

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>Sitei132 – 133Cleavage; by viral serine proteaseSequence analysis2
Sitei325 – 326Cleavage; by viral serine proteaseBy similarity2
Sitei402 – 403Cleavage; by viral serine proteaseSequence analysis2

Keywords - PTMi

Covalent protein-RNA linkage

Proteomic databases

PRoteomics IDEntifications database

More...PRIDEi		P21405

<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>Domaini135 – 330Peptidase S39PROSITE-ProRule annotationAdd BLAST196
Domaini694 – 808RdRp catalyticPROSITE-ProRule annotationAdd BLAST115

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 biasi380 – 383Poly-Asp4

Keywords - Domaini

Transmembrane, Transmembrane helix

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		2.40.10.10, 2 hits

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR043502, DNA/RNA_pol_sf
IPR009003, Peptidase_S1_PA
IPR043504, Peptidase_S1_PA_chymotrypsin
IPR000382, Peptidase_S39B_luteovirus
IPR001795, RNA-dir_pol_luteovirus
IPR007094, RNA-dir_pol_PSvirus

Pfam protein domain database

More...Pfami		View protein in Pfam
PF02123, RdRP_4, 1 hit

Protein Motif fingerprint database; a protein domain database

More...PRINTSi		PR00914, LVIRUSRNAPOL

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF50494, SSF50494, 1 hit
SSF56672, SSF56672, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51868, PEPTIDASE_S39, 1 hit
PS50507, RDRP_SSRNA_POS, 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 P2AB (identifier: P21405-1) [UniParc]FASTAAdd to basket

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
MYRPSCLSYV LLVANMWSFA VCANAFIYGS YDPSHNIPIV ALMTLCATGL 
        60         70         80         90        100
WLSTSVVSFG IRYVRVRVSP EKTQNRTIYV SSGLPHFDPV YGVVKKCEPM 
       110        120        130        140        150
GGGPAIELQV NPSWIHLLPT SPAINKVEVG QESAILGSTY SVVETGGEPK 
       160        170        180        190        200
SLVAVKSGDS TLGFGARVYH EGMDVLMVPH HVWYNDKPHT ALAKNGRSVD 
       210        220        230        240        250
TEDWEVEAAC ADPRIDFVLV KVPTAVWAKL AVRSTKVLAP VHGTAVQTFG 
       260        270        280        290        300
GQDSKQLFSG LGKAKALDNA WEFTHTAPTA KGWSGTPLYT RDGIVGMHTG 
       310        320        330        340        350
YVDIGTSNRA INMHFIMSCL VSKMETLPPE LGYREISLED VGLRSFEFLE 
       360        370        380        390        400
VEIENRGKVK LGKREFAWVP KGKAWADMLD DDDLPLPPKM VNGNLVWADA 
       410        420        430        440        450
QESFDGALPL NLLAGGRTQC LAAQIELGDY KFSCGPTHET GGMPFRNCGS 
       460        470        480        490        500
STCKFREVSR KPVADAVTAA TKVFPELSEL GWPERGSGAE IGSLLLQAGK 
       510        520        530        540        550
FVPTKAPSNL EQAYNNLLSR YPRSKPLACF RQGTWSFDAI FEQVVSKATS 
       560        570        580        590        600
AEINQKASPG VPLSRLATTN KDLMAQHMQF VAACVTGRVP LLASFEDIHA 
       610        620        630        640        650
LSPTEMVEMG LCDPVRLFVK QEPHPSRKLK EGRYRLISSV SIVDQLVERM 
       660        670        680        690        700
LFGAQNELEI AEWQSIPSKP GMGLSVIHQA DAIFRDLRVK HTVCPAAEAD 
       710        720        730        740        750
ISGFDWSVQD WELWADVEMR IVLGSFPPMM ARAARNRFSC FMNSVLQLSN 
       760        770        780        790        800
GQLLQQELPG IMKSGSYCTS STNSRIRCLM AELIGSPWCI AMGDDSVEGF 
       810        820        830        840        850
VEGAREKYAG LGHLCKDYKP CATTPTGQLY AVEFCSHVIK RNKAFLTSWP 
       860        870        880        890        900
KTLYRFLSTP RETLEDLERE LASSPMWHKI QSYVRSIPSP DKTARDKSIC 
       910        920        930        940        950
NGYPLDQEAI STSYSEYSSK SASAEATREA ACCAGAQAYP SWGIHGPYCS 

GDHGEA
Note: Produced by -1 ribosomal frameshifting at the 2A-2B genes boundary.
Length:956
Mass (Da):104,849
Last modified:June 28, 2011 - v2
<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:i4670F3E7CDB7C85C
GO
Isoform Polyprotein P2A (identifier: Q83470-1) [UniParc]FASTAAdd to basket
The sequence of this isoform can be found in the external entry Q83470.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:572
Mass (Da):62,182
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
M23021 Genomic RNA Translation: AAA46565.1

Protein sequence database of the Protein Information Resource

More...PIRi		B33739, RRBWSC

NCBI Reference Sequences

More...RefSeqi		NP_042301.2, NC_001625.2
NP_042302.3, NC_001625.2 [P21405-1]

Genome annotation databases

Database of genes from NCBI RefSeq genomes

More...GeneIDi		1481842
1481843

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		vg:1481842
vg:1481843

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
M23021 Genomic RNA Translation: AAA46565.1
PIRiB33739, RRBWSC
RefSeqiNP_042301.2, NC_001625.2
NP_042302.3, NC_001625.2 [P21405-1]

3D structure databases

Database of comparative protein structure models

More...ModBasei		Search...

SWISS-MODEL Interactive Workspace

More...SWISS-MODEL-Workspacei		Submit a new modelling project...

Proteomic databases

PRIDEiP21405

Genome annotation databases

GeneIDi1481842
1481843
KEGGivg:1481842
vg:1481843

Family and domain databases

Gene3Di2.40.10.10, 2 hits
InterProiView protein in InterPro
IPR043502, DNA/RNA_pol_sf
IPR009003, Peptidase_S1_PA
IPR043504, Peptidase_S1_PA_chymotrypsin
IPR000382, Peptidase_S39B_luteovirus
IPR001795, RNA-dir_pol_luteovirus
IPR007094, RNA-dir_pol_PSvirus
PfamiView protein in Pfam
PF02123, RdRP_4, 1 hit
PRINTSiPR00914, LVIRUSRNAPOL
SUPFAMiSSF50494, SSF50494, 1 hit
SSF56672, SSF56672, 1 hit
PROSITEiView protein in PROSITE
PS51868, PEPTIDASE_S39, 1 hit
PS50507, RDRP_SSRNA_POS, 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 nameiRDRP_SCPMV
<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: P21405
<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: May 1, 1991
Last sequence update: June 28, 2011
Last modified: December 2, 2020
This is version 103 of the entry and version 2 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
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