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Entry version 78 (11 Dec 2019)
Sequence version 1 (01 Nov 1996)
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Protein

Replicase polyprotein 1a

Gene

ORF1a

Organism
Lettuce infectious yellows virus (isolate United States/92) (LIYV)
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>
-Protein predictedi <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

<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 sitei344For leader protease activityBy similarity1
Active sitei393For leader protease activityBy similarity1

<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 functionHelicase, Hydrolase, Methyltransferase, Protease, Thiol protease, Transferase
LigandATP-binding, Nucleotide-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 1a
Cleaved into the following 2 chains:
Leader protease (EC:3.4.22.-)
Short name:
L-PRO
Methyltransferase/helicase (EC:2.1.1.-, EC:3.6.4.13)
<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:ORF1a
<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>OrganismiLettuce infectious yellows virus (isolate United States/92) (LIYV)
<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 identifieri651355 [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 lineageiVirusesRiboviriaClosteroviridaeCrinivirus
<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 hostiBeta vulgaris (Sugar beet) [TaxID: 161934]
Citrullus lanatus (Watermelon) (Citrullus vulgaris) [TaxID: 3654]
Cucumis melo (Muskmelon) [TaxID: 3656]
Cucurbita maxima (Pumpkin) (Winter squash) [TaxID: 3661]
Cucurbita moschata (Winter crookneck squash) (Cucurbita pepo var. moschata) [TaxID: 3662]
Cucurbita pepo (Vegetable marrow) (Summer squash) [TaxID: 3663]
Daucus carota (Wild carrot) [TaxID: 4039]
Lactuca sativa (Garden lettuce) [TaxID: 4236]
<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
  • UP000001099 <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 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_00004025071 – 1873Replicase polyprotein 1aAdd BLAST1873
ChainiPRO_00004025081 – 413Leader proteaseBy similarityAdd BLAST413
ChainiPRO_0000402509414 – 1873Methyltransferase/helicaseBy similarityAdd BLAST1460

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>Sitei413 – 414Cleavage; by the leader proteaseBy similarity2

<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>Domaini495 – 674Alphavirus-like MTPROSITE-ProRule annotationAdd BLAST180
Domaini1538 – 1705(+)RNA virus helicase ATP-bindingAdd BLAST168
Domaini1706 – 1873(+)RNA virus helicase C-terminalAdd BLAST168

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR027351 (+)RNA_virus_helicase_core_dom
IPR002588 Alphavirus-like_MT_dom
IPR027417 P-loop_NTPase

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01443 Viral_helicase1, 1 hit
PF01660 Vmethyltransf, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF52540 SSF52540, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51743 ALPHAVIRUS_MT, 1 hit
PS51657 PSRV_HELICASE, 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
Note: The replicase 1a is produced from conventional translation of the 1a ORF. The replicase 1ab is generated probably by a +1 ribosomal frameshifting mechanism occurring at the 1a-1b genes boundary.
Isoform Replicase 1a (identifier: Q83044-1) [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
MALEVESAFS LSYLLKENKQ TSNNLFSLIQ VPYTKMTHAK GKKTHLLRCI
60 70 80 90 100
LGSPFETLTK SSIRRSLKNL REVCNLPYCN FKKIPKNISY KYQNPFLKLY
110 120 130 140 150
EINNNFINCK VGATGNTNST YDWRNLSTIG NGWSVTSYHN DSVSRLHVSM
160 170 180 190 200
VNNIPNSNTK KLSWWVTRVR SKNPWKRPYK VIYQRDFRDD GIKPYVSEFI
210 220 230 240 250
LYAPKNRADL EMQSILLSSV ECFQDIKYAL NYWTNLKFKE ICNSALKRFT
260 270 280 290 300
QTNIIITPVK PRVVSVNKAR EVSSSVEVKL QRYEREGEVF VVSKAGKEDT
310 320 330 340 350
RVLNDDNAIR NLFNATLNGG KYKLHPEAKS ATGKRFKYYK DGFCWLDVFA
360 370 380 390 400
DANRRIPEWV KPHCLLTGSV LMSCGLWDFA KRKMVSVSHG LLHYDRKLER
410 420 430 440 450
SSARAGVRDF VGASNEAVQR EDFRDLDLRV EEFAERVLET ANLRSDNRLI
460 470 480 490 500
DNILTRASDY INKKSKESKE LDINVCLSMD EKKMITNLFP DIQMSFNQKS
510 520 530 540 550
YSNHGVFNAM RACENFYFSR KFKNSDYIDA GGDVVSTLRS KNHNVHICSP
560 570 580 590 600
RLDLKDAARH IQRATVIDGL KGYGETISFC TNKTEDCAVN RDIIIAVEVY
610 620 630 640 650
DMTLRDMAKA MLSHGSRKFE FSCIIPPEIF TKECNVELYE GRLKVTRIGD
660 670 680 690 700
NVEYYYGSNG ETFSHSCQTL KDILSVQVFQ FGGRVFKKTL EHSRGQLHFF
710 720 730 740 750
SICICEKIEP GSVKLKTYYQ RSELDKVTLR IPVKDSFGVV THYIIKEDRE
760 770 780 790 800
FVSSMIEYVA NTGIKIDDKM VEWTYSQYRA KKTVTIKSGK VTQKETRIRK
810 820 830 840 850
ELIPGFIAII MSEGIRAREK THYLAKMLYT SHYKPSIVNI IFRLIMHFLG
860 870 880 890 900
GTKRFIYESL VDCLKFLTNS DYIDTIVNTE SRIEDLDKWF VFEQNVTITT
910 920 930 940 950
DAEDQPSILE QSVKTFLSKY SEDVYERGDR SEFELEEFSS EQDLVDQLLN
960 970 980 990 1000
SGGGSKEDEW FYSYIFSIVR TKCTLSLAWR WTNRIFNFIT SCRAKGKDFV
1010 1020 1030 1040 1050
KYIYEIIKII INKPWEALCH YLVQGYKTVL KIPMTCVDSV NYLKRKSLEK
1060 1070 1080 1090 1100
ILSYFSHERA DDEYIFPGYD SDFSEESGDY GDENTELDSR SRCTVIKSKV
1110 1120 1130 1140 1150
EMLFRNIKGH IEKFLQRCGI IDQYNKIYHW FKSILTDVDC FNSVLNFITH
1160 1170 1180 1190 1200
TGCDALLAVL TGHFSIASCA LKFMTDVVIE KNLSEKHHTT TKLIAGNLTQ
1210 1220 1230 1240 1250
CIYKLDFIHP IWIPIRWGVK EISKIHIKKK LLNWRSTKEV TNESICKDLV
1260 1270 1280 1290 1300
HKSYIKYFDI KKAVWLLWFS LLIIFLHPTL GFFILFSIYP AIEIKRYYNN
1310 1320 1330 1340 1350
VVCFNNIKMS YPHVIDRLGG TYNFAKLKKA VREKFSENKS QGVKISEIPA
1360 1370 1380 1390 1400
EKDEDVMPPL EEVETPKRSV GRPSSKQDDI EDECNIKEDP TESLNFSNIE
1410 1420 1430 1440 1450
ATSNRYDTLR VGNSKLCKFL RFYPKSKCYA NIQTGDLIRD SIEEFYHLER
1460 1470 1480 1490 1500
SKLDIEISKM QRVVEIMNDT GRMLDNVRRM IDDRSMYVTL DGVSWYRLGC
1510 1520 1530 1540 1550
KDKNPAKEDF KAIFDHNFNI MEGNAKVKEF AVSSDEWRGM YSNERCRAIE
1560 1570 1580 1590 1600
QLFNDNNEMV RRPDVNGLKF YNKPPGAGKT TTIAKLMSKD LKNKVKCLAL
1610 1620 1630 1640 1650
SYTKVGRLEL IDKLKKDGIE KPEKYVKTYD SFLMNNDNIL EIVNLYCDEV
1660 1670 1680 1690 1700
FMMHAGHFLT LLTKIAYQNG YCYGDVNQIP FINRDPYTPA YLSREFFRKQ
1710 1720 1730 1740 1750
DLNYDTYTYR CPLDTCYLLS NLKDEMGNII YAGGVKNVNE VYPTIRSLNL
1760 1770 1780 1790 1800
FGINVVGEVP VEYNAKYLTF TQDEKLNLQR HIDSQGGCRN AVSTVNEAQG
1810 1820 1830 1840 1850
CTFSEVNLVR LVQFDNPVMS DINQFVVAIS RHTTTFKYFT PHSRLNDRVS
1860 1870
NAISSLQSVS DFVLKDYHFR QCL
Length:1,873
Mass (Da):217,266
Last modified:November 1, 1996 - 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:i55A771D8357761F0
GO
Isoform Replicase 1ab (identifier: Q83045-1) [UniParc]FASTAAdd to basket
The sequence of this isoform can be found in the external entry Q83045.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:2,379
Mass (Da):276,048
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
U15440 Genomic RNA Translation: AAA61797.1

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
U15440 Genomic RNA Translation: AAA61797.1

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...

Family and domain databases

InterProiView protein in InterPro
IPR027351 (+)RNA_virus_helicase_core_dom
IPR002588 Alphavirus-like_MT_dom
IPR027417 P-loop_NTPase
PfamiView protein in Pfam
PF01443 Viral_helicase1, 1 hit
PF01660 Vmethyltransf, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
PROSITEiView protein in PROSITE
PS51743 ALPHAVIRUS_MT, 1 hit
PS51657 PSRV_HELICASE, 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_LIYV9
<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: Q83044
<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: November 30, 2010
Last sequence update: November 1, 1996
Last modified: December 11, 2019
This is version 78 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
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