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Entry version 56 (05 Jun 2019)
Sequence version 2 (30 Nov 2010)
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Protein

Probable RNA-directed RNA polymerase

Gene

gag-pol

Organism
Saccharomyces cerevisiae virus L-BC (ScV-L-BC) (ScVLa)
Status
Reviewed-Annotation score:

Annotation score:3 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 transcript 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

RNA-dependent RNA polymerase which replicates the viral genome. Catalyzes the transcription of fully conservative plus-strand genomic RNAs that are extruded from the virion into the cytoplasm where they function as mRNAs for translation of viral proteins and also as substrates for encapsidation to form new virions. Once encapsidated, the positive strand is converted to dsRNA by the RNA-directed RNA polymerase (By similarity).By similarity

Miscellaneous

One molecule or two of Gag capsid protein is replaced in the virion by Gag-Pol because the fusion protein is essential for RNA encapsidation and replication.By similarity

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

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

GO - Biological processi

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

Molecular functionHydrolase, Nucleotidyltransferase, RNA-binding, RNA-directed RNA polymerase, 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_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Probable RNA-directed RNA polymerase (EC:2.7.7.48)
Alternative name(s):
Gag-Pol protein
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:gag-pol
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiSaccharomyces cerevisiae virus L-BC (ScV-L-BC) (ScVLa)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri42478 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiVirusesRiboviriaTotiviridaeTotivirus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section only exists in viral entries and indicates the host(s) either as a specific organism or taxonomic group of organisms that are susceptible to be infected by a virus.<p><a href='/help/virus_host' target='_top'>More...</a></p>Virus hostiSaccharomyces cerevisiae (Baker's yeast) [TaxID: 4932]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000207604 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Genome

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

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002229921 – 1512Probable RNA-directed RNA polymeraseAdd BLAST1512

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
P23172

<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

<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

Phylogenomic databases

Database of Orthologous Groups

More...
OrthoDBi
2002at10239

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.90.1840.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR015302 Major_coat_LA-virus
IPR036332 Major_coat_LA-virus_sf
IPR001795 RNA-dir_pol_luteovirus

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF09220 LA-virus_coat, 1 hit
PF02123 RdRP_4, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF82856 SSF82856, 1 hit

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

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

This entry describes 2 <p>This subsection of the ‘Sequence’ section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by ribosomal frameshifting. AlignAdd to basket
Isoform RNA-directed RNA polymerase (identifier: P23172-1) [UniParc]FASTAAdd to basket
Also known as: Pol protein

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
MSSLLNSLLP EYFKPKTNLN INSSRVQYGF NARIDMQYED DSGTRKGSRP
60 70 80 90 100
NAFMSNTVAF IGNYEGIIVD DIPILDGLRA DIFDTHGDLD MGLVEDALSK
110 120 130 140 150
STMIRRNVPT YTAYASELLY KRNLTSLFYN MLRLYYIKKW GSIKYEKDAI
160 170 180 190 200
FYDNGHACLL NRQLFPKSRD ASLESSLSLP EAEIAMLDPG LEFPEEDVPA
210 220 230 240 250
ILWHGRVSSR ATCILGQACS EFAPLAPFSI AHYSPQLTRK LFVNAPAGIE
260 270 280 290 300
PSSGRYTHED VKDAITILVS ANQAYTDFEA AYLMLAQTLV SPVPRTAEAS
310 320 330 340 350
AWFINAGMVN MPTLSCANGY YPALTNVNPY HRLDTWKDTL NHWVAYPDML
360 370 380 390 400
FYHSVAMIES CYVELGNVAR VSDSDAINKY TFTELSVQGR PVMNRGIIVD
410 420 430 440 450
LTLVAMRTGR EISLPYPVSC GLTRTDALLQ GTEIHVPVVV KDIDMPQYYN
460 470 480 490 500
AIDKDVIEGQ ETVIKVKQLP PAMYPIYTYG INTTEFYSDH FEDQVQVEMA
510 520 530 540 550
PIDNGKAVFN DARKFSKFMS IMRMMGNDVT ATDLVTGRKV SNWADNSSGR
560 570 580 590 600
FLYTDVKYEG QTAFLVDMDT VKARDHCWVS IVDPNGTMNL SYKMTNFRAA
610 620 630 640 650
MFSRNKPLYM TGGSVRTIAT GNYRDAAERL RAMDETLRLK PFKITEKLDF
660 670 680 690 700
SCSSLRDTKF VGQQYAILTP SGTTTDIRSG RGTNQSYRRG RTSTGYRIGV
710 720 730 740 750
EDDEDLDIGT VKYIVPLYLN GDNVAQNCLE ATHVLIKACS IANRIVDDGE
760 770 780 790 800
GHCFTQQGLA QQWIFHRGEM IFVKAVRIGQ LNAYYVDYKN VTNYSLKTAA
810 820 830 840 850
QVGATISNNL RHGFVDNQQD AYTRLVANYS DTRKWIRDNF TYNYNMEKEK
860 870 880 890 900
YRITQYHHTH VRLKDLFPSR KIVKLEGYEA LLAMMLDRFN NIESTHVTFF
910 920 930 940 950
TYLRALPDRE KEVFISLVLN YNGLGREWLK SEGVRAKQAQ GTVKYDMSKL
960 970 980 990 1000
FELNVLENGV DEEVDWEKEK RNRSDIKTVN ISYAKVLEHC RELFIMARAE
1010 1020 1030 1040 1050
GKRPMRMKWQ EYWRQRAVIM PGGSVHSQHP VEQDVIRVLP REIRSKKGVA
1060 1070 1080 1090 1100
SVMPYKEQKY FTSRRPEIHA YTSTKYEWGK VRALYGCDFS SHTMADFGLL
1110 1120 1130 1140 1150
QCEDTFPGFV PTGSYANEDY VRTRIAGTHS LIPFCYDFDD FNSQHSKEAM
1160 1170 1180 1190 1200
QAVIDAWISV YHDKLTDDQI EAAKWTRNSV DRMVAHQPNT GETYDVKGTL
1210 1220 1230 1240 1250
FSGWRLTTFF NTALNYCYLA NAGINSLVPT SLHNGDDVFA GIRTIADGIS
1260 1270 1280 1290 1300
LIKNAAATGV RANTTKMNIG TIAEFLRVDM RAKNSTGSQY LTRGIATFTH
1310 1320 1330 1340 1350
SRVESDAPLT LRNLVSAYKT RYDEILARGA SIDNMKPLYR KQLFFARKLF
1360 1370 1380 1390 1400
NVEKDIVDNL ITMDISCGGL QEKGRVSEMV LQEVDIENID SYRKTRMIAK
1410 1420 1430 1440 1450
LIDKGVGDYT AFLKTNFSEI ADAITRETRV ESVTKAYNVK KKTVVRAFRD
1460 1470 1480 1490 1500
LSAAYHERAV RHAWKGMSGL HIVNRIRMGV SNLVMVVSKI NPAKANVLAK
1510
SGDPTKWLAV LT
Note: Produced by -1 ribosomal frameshifting.
Length:1,512
Mass (Da):171,449
Last modified:November 30, 2010 - 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:iE1CFE4289C72D4C2
GO
Isoform Major capsid protein (identifier: Q87026-1) [UniParc]FASTAAdd to basket
Also known as: Gag protein
The sequence of this isoform can be found in the external entry Q87026.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by conventional translation.
Length:697
Mass (Da):78,316
GO

<p>This subsection of the ‘Sequence’ section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAB02146 differs from that shown. Reason: Erroneous gene model prediction.Curated

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
X54405 mRNA Translation: CAA38271.1
U01060 Genomic RNA Translation: AAB02146.1 Sequence problems.

Protein sequence database of the Protein Information Resource

More...
PIRi
S72354

NCBI Reference Sequences

More...
RefSeqi
NP_042581.1, NC_001641.1

Genome annotation databases

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
1403712

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
vg:1403712

Keywords - Coding sequence diversityi

Ribosomal frameshifting

<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
X54405 mRNA Translation: CAA38271.1
U01060 Genomic RNA Translation: AAB02146.1 Sequence problems.
PIRiS72354
RefSeqiNP_042581.1, NC_001641.1

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

PRIDEiP23172

Genome annotation databases

GeneIDi1403712
KEGGivg:1403712

Phylogenomic databases

OrthoDBi2002at10239

Family and domain databases

Gene3Di3.90.1840.10, 1 hit
InterProiView protein in InterPro
IPR015302 Major_coat_LA-virus
IPR036332 Major_coat_LA-virus_sf
IPR001795 RNA-dir_pol_luteovirus
PfamiView protein in Pfam
PF09220 LA-virus_coat, 1 hit
PF02123 RdRP_4, 1 hit
SUPFAMiSSF82856 SSF82856, 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_SCVLB
<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: P23172
Secondary accession number(s): Q87027
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1991
Last sequence update: November 30, 2010
Last modified: June 5, 2019
This is version 56 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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