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Protein

RNA-directed RNA polymerase

Gene

ORF1

Organism
Carnation ringspot virus (isolate Lommel) (CRSV)
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:
RNA-directed RNA polymerase (EC:2.7.7.48)
Alternative name(s):
Protein p88
Gene namesi
ORF Names:ORF1
OrganismiCarnation ringspot virus (isolate Lommel) (CRSV)
Taxonomic identifieri652597 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageTombusviridaeDianthovirus
Virus hostiDianthus barbatus [TaxID: 278075]
Dianthus caryophyllus (Carnation) (Clove pink) [TaxID: 3570]
ProteomesiUP000000574: Genome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 769769RNA-directed RNA polymerasePRO_0000398304Add
BLAST

Structurei

3D structure databases

ProteinModelPortaliQ66096.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini463 – 579117RdRp catalyticPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Family and domain databases

InterProiIPR007094. RNA-dir_pol_PSvirus.
IPR002166. RNA_pol_HCV.
[Graphical view]
PfamiPF00998. 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 88 kDa protein (identifier: Q66096-1) [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
MAIFELFSFD IDKLLVWVSK FSPGKILSAI CRLGLDSWNN FRKWFWGLNF
60 70 80 90 100
DKHEWAVDHF MPLMPRFSSD MDEVAKRIVT PKSKPKLEDC LEIDTAVEEC
110 120 130 140 150
FNEECFEPQE DGSMKLKRVA APQQIKRVRT GMIEDAISAV EARIRNRHMI
160 170 180 190 200
MGDDMGLVDE AAVRATAMDI CGEYKINEHH TRCIIYAAAY RAMTPDQESI
210 220 230 240 250
DATKMAYNPK SQARRDLVSI LRKNISFGGF KSLEDFLSAP VSFPVEDAPY
260 270 280 290 300
QILGIPEIKV ADKRASRVCK FKRVVGLPSL SAGQSVCVHK TSLHNMIVSL
310 320 330 340 350
EQRVFRVKNE TGEFVVPPQP SKGAFDSISY FREAWKKKLY SKGPVVKSSI
360 370 380 390 400
DDVVACYSSE KKKLYQKGAA TLSHRPLHWR DSKVRAFIKV EKLECDKKAP
410 420 430 440 450
VPRTIQPRSK RYNLCIGRYL RLNEKRMLDA IDAVFGEKTV LSGLDNKAQG
460 470 480 490 500
RAIAKKWSKY ESPIGIGLDA SRFDQHCSKD ALKFEHSFYR ECFPDDKTSP
510 520 530 540 550
DLLDWQLENE GSALMPTESL VKYRTRCRMS GDINTGLGNK ILMCSMVHAY
560 570 580 590 600
LKEVGVNASL ANNGDDCVLF CEKGDFNRIN DSLREWFLCR GFNMVVEEPV
610 620 630 640 650
ECLERVVFCR SQPVCVATKW AMVRQLGSLS RDCFSTQNWL NPTTFRDAMN
660 670 680 690 700
ALGQCNGIIN DGVPVHMAQA KRMYAAGGNR KFDLKALHKQ MEYSWRDRLG
710 720 730 740 750
ARTNLLWSEV EDSTRLSYFR AFGIEPAVQR IVEGYFSESK ISEEGRQTNF
760
LPTHYSRLHK DLLVPRYLN

Note: Produced by ribosomal frameshifting between codons 236 and 237.

Length:769
Mass (Da):87,776
Last modified:October 5, 2010 - v2
Checksum:i0B9FBFD6D28949AA
GO
Isoform protein p27 (identifier: Q66096-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     237-767: Missing.

Note: Produced by conventional translation.

Show »
Length:238
Mass (Da):27,386
Checksum:i02A1E8922B798705
GO

Sequence cautioni

The sequence AAA20212.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei237 – 767531Missing in isoform protein p27. CuratedVSP_039744Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L18870 Genomic RNA. Translation: AAA20211.1.
L18870 Genomic RNA. Translation: AAA20212.1. Sequence problems.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L18870 Genomic RNA. Translation: AAA20211.1.
L18870 Genomic RNA. Translation: AAA20212.1. Sequence problems.

3D structure databases

ProteinModelPortaliQ66096.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

InterProiIPR007094. RNA-dir_pol_PSvirus.
IPR002166. RNA_pol_HCV.
[Graphical view]
PfamiPF00998. RdRP_3. 1 hit.
[Graphical view]
PROSITEiPS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Nucleotide sequence of carnation ringspot dianthovirus RNA-1."
    Ryabov E.V., Generozov E.V., Kendall T.L., Lommel S.A., Zavriev S.K.
    J. Gen. Virol. 75:243-247(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. Sit T.L., Lommel S.A.
    Submitted (MAR-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiRDRP_CRSVL
AccessioniPrimary (citable) accession number: Q66096
Secondary accession number(s): Q66097
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 5, 2010
Last sequence update: October 5, 2010
Last modified: January 7, 2015
This is version 36 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

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.