Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Putative RNA-directed RNA polymerase

Gene

ORF1/ORF2

Organism
Barley yellow dwarf virus (isolate PAV) (BYDV)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Probable polymerase.

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).PROSITE-ProRule annotation

GO - Molecular functioni

  1. nucleotide binding Source: UniProtKB-KW
  2. RNA binding Source: InterPro
  3. RNA-directed RNA polymerase activity Source: UniProtKB-KW

GO - Biological processi

  1. viral RNA genome replication Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, RNA-directed RNA polymerase, Transferase

Keywords - Biological processi

Viral RNA replication

Keywords - Ligandi

Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Putative RNA-directed RNA polymerase (EC:2.7.7.48)
Gene namesi
ORF Names:ORF1/ORF2
OrganismiBarley yellow dwarf virus (isolate PAV) (BYDV)
Taxonomic identifieri12040 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageLuteoviridaeLuteovirus
Virus hostiAvena byzantina [TaxID: 146531]
Avena sativa (Oat) [TaxID: 4498]
Hordeum vulgare (Barley) [TaxID: 4513]
Lolium multiflorum (Italian ryegrass) (Lolium perenne subsp. multiflorum) [TaxID: 4521]
Lolium perenne (Perennial ryegrass) [TaxID: 4522]
Oryza sativa (Rice) [TaxID: 4530]
Secale cereale (Rye) [TaxID: 4550]
Triticum aestivum (Wheat) [TaxID: 4565]
Zea mays (Maize) [TaxID: 4577]
ProteomesiUP000006722: Genome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 867867Putative RNA-directed RNA polymerasePRO_0000039186Add
BLAST

Structurei

3D structure databases

ProteinModelPortaliP09505.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini561 – 676116RdRp catalyticPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the luteoviruses RNA polymerase family.Curated
Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Family and domain databases

InterProiIPR013674. Luteo_Rpol_P1-P2.
IPR007094. RNA-dir_pol_PSvirus.
IPR002166. RNA_pol_HCV.
[Graphical view]
PfamiPF08467. Luteo_P1-P2. 1 hit.
PF00998. RdRP_3. 1 hit.
[Graphical view]
PROSITEiPS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by ribosomal frameshifting. Align

Isoform Putative RNA-directed RNA polymerase (identifier: P09505-1) [UniParc]FASTAAdd to Basket

This isoform has been chosen as the 'canonical' 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
MFFEILIGAS AKAVKDFISH CYSRLKSIYY SFKRWLMEIS GQFKAHDAFV
60 70 80 90 100
NMCFGHMADI EDFEAELAEE FAEREDEVEE ARSLLKLLVA QKSKSGVTEA
110 120 130 140 150
WTDFFTKSRG GVYAPLSCEP TRQELEVKSE KLERLLEEQH QFEVRAAKKY
160 170 180 190 200
IKEKGRGFIN CWNDLRSRLR LVKDVKDEAK DNARAAAKIG AEMFAPVDVQ
210 220 230 240 250
DLYSFTEVKK VETGLMKEVV KEKNGEEEKH LEPIMEEVRS IKDTAEARDA
260 270 280 290 300
ASTWITETVK LKNATLNADE LSLATIARYV ENVGDKFKLD IASKTYLKQV
310 320 330 340 350
ASMSVPIPTN KDIKLKMVLQ SPEARARRER MDVLDSVGFL EGLCTASGFE
360 370 380 390 400
SPFPILGLPE IAVTDGARLR KVSSNIRYLS QTHLGLVYKA PNASLHNALV
410 420 430 440 450
AVERRVFTVG KGDKAIYPPR PEHDIFTDTM DYFQKSIIEE VGYCKTYPAQ
460 470 480 490 500
LLANSYSAGK RAMYHKAIAS LKTVPYHQKD ANVQAFLKKE KHWMTKDIAP
510 520 530 540 550
RLICPRSKRY NIILGTRLKF NEKKIMHAID SVFGSPTVLS GYDNFKQGRI
560 570 580 590 600
IAKKWQKFAC PVAIGVDASR FDQHVSEQAL KWEHGIYNGI FGDSEMALAL
610 620 630 640 650
EHQITNNIKM FVEDKMLRFK VRGHRMSGDI NTSMGNKLIM CGMMHAYLKK
660 670 680 690 700
LGVEAELCNN GDDCVIITDR ANEKLFDGMY DHFLQYGFNM VTEKPVYELE
710 720 730 740 750
QLEFCQSKPV SINGKYRMVR RPDSIGKDST TLLSMLNQSD VKSYMSAVAQ
760 770 780 790 800
CGLVLNAGVP ILESFYKCLY RSSGYKKVSE EFIKNVISYG TDERLQGRRT
810 820 830 840 850
YNETPITNHS RMSYWESFGV DPKIQQIVER YYDGLTVSAQ LQSVKVTTPH
860
LQSILLSIPE NHSQNEY

Note: Produced by -1 ribosomal frameshifting between codons 339 and 340.

Length:867
Mass (Da):98,662
Last modified:November 1, 1991 - v2
Checksum:i12E2C7AD52EE593B
GO
Isoform 39 kDa protein (identifier: P09505-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     340-867: Missing.

Note: Produced by conventional translation.

Show »
Length:339
Mass (Da):38,735
Checksum:iBAFA634C9E1F1732
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei340 – 867528Missing in isoform 39 kDa protein. CuratedVSP_031895Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X07653 Genomic RNA. Translation: CAA30498.1. Sequence problems.
PIRiA59303.
RefSeqiNP_840014.2. NC_004750.1. [P09505-1]
NP_840067.1. NC_004750.1. [P09505-2]

Genome annotation databases

GeneIDi1492001.
1492003.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X07653 Genomic RNA. Translation: CAA30498.1. Sequence problems.
PIRiA59303.
RefSeqiNP_840014.2. NC_004750.1. [P09505-1]
NP_840067.1. NC_004750.1. [P09505-2]

3D structure databases

ProteinModelPortaliP09505.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi1492001.
1492003.

Family and domain databases

InterProiIPR013674. Luteo_Rpol_P1-P2.
IPR007094. RNA-dir_pol_PSvirus.
IPR002166. RNA_pol_HCV.
[Graphical view]
PfamiPF08467. Luteo_P1-P2. 1 hit.
PF00998. RdRP_3. 1 hit.
[Graphical view]
PROSITEiPS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Sequence and organization of barley yellow dwarf virus genomic RNA."
    Miller W.A., Waterhouse P.M., Gerlach W.L.
    Nucleic Acids Res. 16:6097-6111(1988) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. "A -1 ribosomal frameshift element that requires base pairing across four kilobases suggests a mechanism of regulating ribosome and replicase traffic on a viral RNA."
    Barry J.K., Miller W.A.
    Proc. Natl. Acad. Sci. U.S.A. 99:11133-11138(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: RIBOSOMAL FRAMESHIFT.

Entry informationi

Entry nameiRDRP_BYDVP
AccessioniPrimary (citable) accession number: P09505
Secondary accession number(s): P19648
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 1989
Last sequence update: November 1, 1991
Last modified: January 7, 2015
This is version 78 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.