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P22956 (RDRP_RCNMV) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 73. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
RNA-directed RNA polymerase

EC=2.7.7.48
Alternative name(s):
Protein p88
Gene names
ORF Names:ORF1
OrganismRed clover necrotic mosaic virus (RCNMV) [Reference proteome]
Taxonomic identifier12267 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageTombusviridaeDianthovirus
Virus hostMedicago sativa (Alfalfa) [TaxID: 3879]
Melilotus officinalis (Yellow sweet clover) (Trifolium officinale) [TaxID: 47083]
Trifolium pratense (Red clover) [TaxID: 57577]
Trifolium repens (Creeping white clover) [TaxID: 3899]

Protein attributes

Sequence length767 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

RNA-dependent RNA polymerase that plays an essential role in the virus replication Probable. Ref.3

Catalytic activity

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).

Sequence similarities

Belongs to the tombusviridae RNA polymerase family.

Contains 1 RdRp catalytic domain.

Caution

The 57-kDa protein cited in Ref.1 has only been seen in vitro and is likely not expressed in vivo.

Sequence caution

The sequence AAB02541.1 differs from that shown. Reason: Erroneous gene model prediction.

Alternative products

This entry describes 2 isoforms produced by ribosomal frameshifting. [Align] [Select]
Isoform RNA-directed RNA polymerase p88 (identifier: P22956-1)

Also known as: 88 kDa protein;

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.
Note: Produced by ribosomal frameshifting between codons 236 and 237.
Isoform protein p27 (identifier: P22956-2)

The sequence of this isoform differs from the canonical sequence as follows:
     237-767: Missing.
Note: Produced by conventional translation.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 767767RNA-directed RNA polymerase
PRO_0000040206

Regions

Domain463 – 580118RdRp catalytic

Natural variations

Alternative sequence237 – 767531Missing in isoform protein p27.
VSP_032886

Experimental info

Sequence conflict2371Missing in AAB02540. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform RNA-directed RNA polymerase p88 (88 kDa protein) [UniParc].

Last modified November 1, 1991. Version 2.
Checksum: 3515C03BFF4F7A1B

FASTA76787,544
        10         20         30         40         50         60 
MGFINLSLFD VDKLMVWVSK FNPGKILSAI CNLGIDCWNR FRKWFFGLNF DAHMWAVDAF 

        70         80         90        100        110        120 
IPLMPHYTEQ MERVVDDFCS ETPESKLEDC LELDTSVNEF FDEEVYKKDE EGVMKLQRSA 

       130        140        150        160        170        180 
ARKHIKRVRP GMMQAAIKAV ETRIRNRHTI FGDDMGKVDE AAVRATASDI CGEFKINEHH 

       190        200        210        220        230        240 
TNALVYAAAY LAMTPDQRSI DSVKLAYNPK SQARRTLVSA IRENKAVAGF KSLEDFLGGP 

       250        260        270        280        290        300 
LSFPVEDAPY PILGIPEIRV AEKRASRVMK SKRVVGLPAV SAGLKVCVHQ TSLHNMIVSL 

       310        320        330        340        350        360 
ERRVFRVKNS AGELVVPPKP IQNAFDSISY FREEWLRKLS HKGQILKSSL ADVVACYSSE 

       370        380        390        400        410        420 
KRKLYQKAAD SLEKKPVQWR DSKVQAFIKV EKLECDTKDP VPRTIQPRSK RYNLAIGQYL 

       430        440        450        460        470        480 
RLNEKKMLDS IDDVFKEKTV LSGLDNRAQG RAIAHKWRKY QNPIGIGLDA SRFDQHCSVD 

       490        500        510        520        530        540 
ALKFEQTFYK ACFPGDQQLE TLLKWQLSNT GSALLPTGEL VRYRTKGCRM SGDINTGLGN 

       550        560        570        580        590        600 
KILMCSMVHA FLKETGVRAS LANNGDDCVL FCEKGDYEQI NRNLEQWFLC RGFEMTVEKP 

       610        620        630        640        650        660 
VDVLEKVAFC RSQPVCIATQ WAMVRQLGSL SRDCFSTQDW LNPKTFKDAM NALGQCNGII 

       670        680        690        700        710        720 
NDGVPIHMAQ AKLMHRIGGN RKFNLDALHK QMEYSWRDRL GKRTNLLWSE VEDATRLSYF 

       730        740        750        760 
RAFGIEPYIQ RIVEEYFSQV EITCEGRSTN VLPTHYSRIH KDLIKAR 

« Hide

Isoform protein p27 [UniParc].

Checksum: 44AD4823A36CB73B
Show »

FASTA23627,015

References

[1]"The complete nucleotide sequence and genome organization of red clover necrotic mosaic virus RNA-1."
Xiong Z., Lommel S.A.
Virology 171:543-554(1989) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
Strain: Australian.
[2]"Synthesis of the putative red clover necrotic mosaic virus RNA polymerase by ribosomal frameshifting in vitro."
Xiong Z., Kim K.H., Kendall T.L., Lommel S.A.
Virology 193:213-221(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: RIBOSOMAL FRAMESHIFT.
[3]"A plant RNA virus suppresses RNA silencing through viral RNA replication."
Takeda A., Tsukuda M., Mizumoto H., Okamoto K., Kaido M., Mise K., Okuno T.
EMBO J. 24:3147-3157(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
J04357 Genomic RNA. Translation: AAB02539.1.
J04357 Genomic RNA. Translation: AAB02540.1.
J04357 Genomic RNA. Translation: AAB02541.1. Sequence problems.
PIRB43684. T10779.
RefSeqNP_620523.1. NC_003756.1.
NP_620524.1. NC_003756.1. [P22956-2]

3D structure databases

ProteinModelPortalP22956.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID956630.
956631.

Family and domain databases

InterProIPR007094. RNA-dir_pol_PSvirus.
IPR002166. RNA_pol_HCV.
[Graphical view]
PfamPF00998. RdRP_3. 1 hit.
[Graphical view]
PROSITEPS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameRDRP_RCNMV
AccessionPrimary (citable) accession number: P22956
Secondary accession number(s): P22957, Q86156, Q86157
Entry history
Integrated into UniProtKB/Swiss-Prot: August 1, 1991
Last sequence update: November 1, 1991
Last modified: May 14, 2014
This is version 73 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families