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Entry version 80 (18 Sep 2019)
Sequence version 1 (01 Mar 2001)
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Protein

RNA-directed RNA polymerase L

Gene

L

Organism
Newcastle disease virus (strain Chicken/United States/B1/48) (NDV)
Status
Reviewed-Annotation score:

Annotation score:4 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

RNA-directed RNA polymerase that catalyzes the transcription of viral mRNAs, their capping and polyadenylation. The template is composed of the viral RNA tightly encapsidated by the nucleoprotein (N). The viral polymerase binds to the genomic RNA at the 3' leader promoter, and transcribes subsequently all viral mRNAs with a decreasing efficiency. The first gene is the most transcribed, and the last the least transcribed. The viral phosphoprotein acts as a processivity factor. Capping is concommitant with initiation of mRNA transcription. Indeed, a GDP polyribonucleotidyl transferase (PRNTase) adds the cap structure when the nascent RNA chain length has reached few nucleotides. Ribose 2'-O methylation of viral mRNA cap precedes and facilitates subsequent guanine-N-7 methylation, both activities being carried by the viral polymerase. Polyadenylation of mRNAs occur by a stuttering mechanism at a slipery stop site present at the end viral genes. After finishing transcription of a mRNA, the polymerase can resume transcription of the downstream gene.By similarity
RNA-directed RNA polymerase that catalyzes the replication of viral genomic RNA. The template is composed of the viral RNA tightly encapsidated by the nucleoprotein (N). The replicase mode is dependent on intracellular N protein concentration. In this mode, the polymerase replicates the whole viral genome without recognizing transcriptional signals, and the replicated genome is not caped or polyadenylated.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

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi1775 – 1784ATPSequence analysis10

<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

<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 functionMethyltransferase, Multifunctional enzyme, Nucleotidyltransferase, RNA-directed RNA polymerase, Transferase
Biological processmRNA capping, mRNA processing, Viral RNA replication
LigandATP-binding, Nucleotide-binding, S-adenosyl-L-methionine

<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:
RNA-directed RNA polymerase L
Short name:
Protein L
Alternative name(s):
Large structural protein
Replicase
Transcriptase
Including the following 4 domains:
RNA-directed RNA polymerase (EC:2.7.7.48By similarity)
mRNA (guanine-N(7)-)-methyltransferase (EC:2.1.1.56By similarity)
GDP polyribonucleotidyltransferase (EC:2.7.7.88By similarity)
Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase 2 (EC:2.1.1.296By similarity)
<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:L
<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>OrganismiNewcastle disease virus (strain Chicken/United States/B1/48) (NDV)
<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 identifieri652953 [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 lineageiVirusesRiboviriaNegarnaviricotaHaploviricotinaMonjiviricetesMononegaviralesParamyxoviridaeAvulavirus
<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 hostiGallus gallus (Chicken) [TaxID: 9031]
<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
  • UP000002328 <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 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

GO - Cellular componenti

Keywords - Cellular componenti

Host cytoplasm, Virion

<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_00003906271 – 2204RNA-directed RNA polymerase LAdd BLAST2204

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
Q9DLD3

<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_section">'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_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Interacts with the P protein.

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

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
Q9DLD3

Database of comparative protein structure models

More...
ModBasei
Search...

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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">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>Domaini634 – 818RdRp catalyticPROSITE-ProRule annotationAdd BLAST185
Domaini1745 – 1958Mononegavirus-type SAM-dependent 2'-O-MTasePROSITE-ProRule annotationAdd BLAST214

<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 paramyxovirus L protein family.Curated

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR024352 L_methyltrans_paramyxo
IPR039736 L_poly_C
IPR026890 Mononeg_mRNAcap
IPR014023 Mononeg_RNA_pol_cat
IPR025786 Mononega_L_MeTrfase
IPR016269 RNA-dir_pol_paramyxovirus

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF12803 G-7-MTase, 1 hit
PF14318 Mononeg_mRNAcap, 1 hit
PF00946 Mononeg_RNA_pol, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF000830 RNA_pol_ParamyxoV, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR04198 paramyx_RNAcap, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50526 RDRP_SSRNA_NEG_NONSEG, 1 hit
PS51590 SAM_MT_MNV_L, 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>Sequencei

<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.

Q9DLD3-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MASSGPERAE HQIILPESHL SSPLVKHKLL YYWKLTGLPL PDECDFDHLI
60 70 80 90 100
LSRQWKKILE SASPDTERMI KLGRAVHQTL NHNSRITGVL HPRCLEELAN
110 120 130 140 150
IEVPDSTNKF RKIEKKIQIH NTRYGELFTR LCTHIEKKLL GSSWSNNVPR
160 170 180 190 200
SEEFSSIRTD PAFWFHSKWS TAKFAWLHIK QIQRHLIVAA RTRSAANKLV
210 220 230 240 250
MLTHKVGQVF VTPELVVVTH TNENKFTCLT QELVLMYADM MEGRDMVNII
260 270 280 290 300
STTAVHLRSL SEKIDDILRL IDALAKDLGN QVYDVVSLME GFAYGAVQLL
310 320 330 340 350
EPSGTFAGDF FAFNLQELKD ILIGLLPNDI AESVTHAIAT VFSGLEQNQA
360 370 380 390 400
AEMLCLLRLW GHPLLESRIA AKAVRSQMCA PKMVDFDMIL QVLSFFKGTI
410 420 430 440 450
INGYRKKNAG VWPRVKVDTI YGKVIGQLHA DSAEISHDIM LREYKSLSAL
460 470 480 490 500
EFEPCIEYDP VTNLSMFLKD KAIAHPNDNW LASFRRNLLS EDQKKHVKEA
510 520 530 540 550
TSTNRLLIEF LESNDFDPYK EMEYLTTLEY LRDDNVAVSY SLKEKEVKVN
560 570 580 590 600
GRIFAKLTKK LRNCQVMAEG ILADQIAPFF QGNGVIQDSI SLTKSMLAMS
610 620 630 640 650
QLSFNSNKKR ITDCKERVSS NRNHDPKSKN RRRVATFITT DLQKYCLNWR
660 670 680 690 700
YQTIKLFAHA INQLMGLPHF FEWIHLRLMD TTMFVGDPFN PPSDPTDCDL
710 720 730 740 750
SRVPNDDIYI VSARGGIEGL CQKLWTMISI AAIQLAAARS HCRVACMVQG
760 770 780 790 800
DNQVIAVTRE VRSDDSPEMV LTQLHQASDN FFKELIHVNH LIGHNLKDRE
810 820 830 840 850
TIRSDTFFIY SKRIFKDGAI LSQVLKNSSK LVLVSGDLSE NTVMSCANIA
860 870 880 890 900
STVARLCENG LPKDFCYYLN YIMSCVQTYF DSEFSITNNS HPDLNQSWIE
910 920 930 940 950
DISFVHSYVL TPAQLGGLSN LQYSRLYTRN IGDPGTTAFA EIKRLEAVGL
960 970 980 990 1000
LSPNIMTNIL TRPPGNGDWA SLCNDPYSFN FETVASPNIV LKKHTQRVLF
1010 1020 1030 1040 1050
ETCSNPLLSG VHTEDNEAEE KALAEFLLNQ EVIHPRVAHA IMEASSVGRR
1060 1070 1080 1090 1100
KQIQGLVDTT NTVIKIALTR RPLGIKRLMR IVNYSSMHAM LFRDDVFSSS
1110 1120 1130 1140 1150
RSNHPLVSSN MCSLTLADYA RNRSWSPLTG GRKILGVSNP DTIELVEGEI
1160 1170 1180 1190 1200
LSVSGGCTRC DSGDEQFTWF HLPSNIELTD DTSKNPPMRV PYLGSKTQER
1210 1220 1230 1240 1250
RAASLAKIAH MSPHVKAALR ASSVLIWAYG DNEVNWTAAL TIAKSRCNVN
1260 1270 1280 1290 1300
LEYLRLLSPL PTAGNLQHRL DDGITQMTFT PASLYRCHLT FTYPMILKGC
1310 1320 1330 1340 1350
SLKKESKRGM WFTNRVMLLG LSLIESIFPM TTTRTYDEIT LHLHSKFSCC
1360 1370 1380 1390 1400
IREAPVAVPF ELLGVAPELR TVTSNKFMYD PSPVSEGDFA RLDLAIFKSY
1410 1420 1430 1440 1450
ELNLESYPTI ELMNILSISS GKLIGQSVVS YDEDTSIKND AIIVYDNTRN
1460 1470 1480 1490 1500
WISEAQNSDV VRLFEYAALE VLLHRSYQLY YLRVRGLDNI VLYMGDLYKN
1510 1520 1530 1540 1550
MPGILLSNIA ATISHPVIHS RLHAVGLVNH DGSHQLADTD FIEMSAKLLV
1560 1570 1580 1590 1600
SCTRRVISGL YSGNKYDLLF PSVLDDNLNE KMLQLISRLC CLYTVLFATT
1610 1620 1630 1640 1650
REIPKIRGLT AEEKCSILTE YLLSDAVKPL LSPDQVSSIM SPNIITFPAN
1660 1670 1680 1690 1700
LYYMSRKSLN LIREREDRDT ILALLFPQEP LLEFPSVQDI GARVKDPFTR
1710 1720 1730 1740 1750
QPAAFLQELD LSAPARYDAF TLSQIHPELT SPNPEEDYLV RYLFRGIGTA
1760 1770 1780 1790 1800
SSSWYKASHL LSVPEVRCAR HGNSLYLAEG SGAIMSLLEL HVPHETIYYN
1810 1820 1830 1840 1850
TLFSNEMNPP QRHFGPTPTQ FLNSVVYRNL QAEVTCKDGF VQEFRPLWRE
1860 1870 1880 1890 1900
NTEESDLTSD KAVGYITSAV PYRSVSLLHC DIEIPPGSNQ SLLDQLAINL
1910 1920 1930 1940 1950
SLIAMHSVRE GGVVIIKVLY AMGYYFHLLM NLFAPCSTKG YILSNGYACR
1960 1970 1980 1990 2000
GDMECYLVFV MGYLGGPTFV HEVVRMAKTL VQRHGTLLSK SDEITLTRLF
2010 2020 2030 2040 2050
TSQRQRVTDI LSSPLPRLIK YLRKNIDTAL IEAGGQPVRP FCAESLVSTL
2060 2070 2080 2090 2100
ANITQITQII ASHIDTVIRS VIYMEAEGDL ADTVFLFTPY NLSTDGKKRT
2110 2120 2130 2140 2150
SLKQCTRQIL EVTILGLRVE NLNKIGDIIS LVLKGMISME DLIPLRTYLK
2160 2170 2180 2190 2200
HSTCPKYLKA VLGITKLKEM FTDTSVLYLT RAQQKFYMKT IGNAVKGYYS

NCDS
Length:2,204
Mass (Da):248,740
Last modified:March 1, 2001 - 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:i9683868FD495A2D2
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AF309418 Genomic RNA Translation: AAG36980.1

NCBI Reference Sequences

More...
RefSeqi
NP_071471.1, NC_002617.1

<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
AF309418 Genomic RNA Translation: AAG36980.1
RefSeqiNP_071471.1, NC_002617.1

3D structure databases

SMRiQ9DLD3
ModBaseiSearch...

Proteomic databases

PRIDEiQ9DLD3

Family and domain databases

InterProiView protein in InterPro
IPR024352 L_methyltrans_paramyxo
IPR039736 L_poly_C
IPR026890 Mononeg_mRNAcap
IPR014023 Mononeg_RNA_pol_cat
IPR025786 Mononega_L_MeTrfase
IPR016269 RNA-dir_pol_paramyxovirus
PfamiView protein in Pfam
PF12803 G-7-MTase, 1 hit
PF14318 Mononeg_mRNAcap, 1 hit
PF00946 Mononeg_RNA_pol, 1 hit
PIRSFiPIRSF000830 RNA_pol_ParamyxoV, 1 hit
TIGRFAMsiTIGR04198 paramyx_RNAcap, 1 hit
PROSITEiView protein in PROSITE
PS50526 RDRP_SSRNA_NEG_NONSEG, 1 hit
PS51590 SAM_MT_MNV_L, 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 nameiL_NDVB1
<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: Q9DLD3
<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: January 19, 2010
Last sequence update: March 1, 2001
Last modified: September 18, 2019
This is version 80 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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