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Protein

RNA-directed RNA polymerase

Gene
N/A
Organism
Rotavirus B (isolate Rat/United States/IDIR/1984) (RV-B) (Rotavirus B (isolate infectious diarrhea of infant rats))
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

RNA-directed RNA polymerase that is involved in both transcription and genome replication. Together with VP3 capping enzyme, forms an enzyme complex positioned near the channels situated at each of the five-fold vertices of the core. Following infection, the outermost layer of the virus is lost, leaving a double-layered particle (DLP) made up of the core and VP6 shell. VP1 then catalyzes the transcription of fully conservative plus-strand genomic RNAs that are extruded through the DLP's channels into the cytoplasm where they function as mRNAs for translation of viral proteins. One copy of each of the viral (+)RNAs is also recruited during core assembly, together with newly synthesized polymerase complexes and VP2. The polymerase of these novo-formed particles catalyzes the synthesis of complementary minus-strands leading to dsDNA formation. To do so, the polymerase specifically recognizes conserved 3' sequence(s) in plus-strand RNA templates. Once dsRNA synthesis is complete, the polymerase switches to the transcriptional mode, thus providing secondary transcription (By similarity).PROSITE-ProRule annotation

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: UniProtKB-KW
  3. RNA-directed RNA polymerase activity Source: UniProtKB-KW

GO - Biological processi

  1. transcription, DNA-templated Source: InterPro
  2. viral 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, RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-directed RNA polymerase (EC:2.7.7.48)
Alternative name(s):
Protein VP1
OrganismiRotavirus B (isolate Rat/United States/IDIR/1984) (RV-B) (Rotavirus B (isolate infectious diarrhea of infant rats))
Taxonomic identifieri28877 [NCBI]
Taxonomic lineageiVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Rattus norvegicus (Rat) [TaxID: 10116]

Subcellular locationi

Virion Curated
Note: Attached inside the inner capsid as a minor component. Also found in spherical cytoplasmic structures, called virus factories, that appear early after infection and are the site of viral replication and packaging (By similarity).By similarity

GO - Cellular componenti

  1. virion Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 11591159RNA-directed RNA polymerasePRO_0000149530Add
BLAST

Interactioni

Subunit structurei

Interacts with VP3 (Potential). Interacts with VP2 (Potential). Interacts with NSP5; this interaction is probably necessary for the formation of functional virus factories (By similarity).By similarityCurated

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini545 – 727183RdRp catalyticPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Family and domain databases

InterProiIPR001795. RNA-dir_pol_luteovirus.
IPR007097. RNA-dir_pol_reovirus.
[Graphical view]
PfamiPF02123. RdRP_4. 1 hit.
[Graphical view]
PROSITEiPS50523. RDRP_DSRNA_REO. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P35942-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MDSFQFFEWL LRDIERNLLY TSLVYTNPKI AIVRYEPSEN AKLWRSKELN
60 70 80 90 100
TDSPNELLLT LKKTLDECST LDEKIETLLR IRYFTVYVGD KSDKRNIIRS
110 120 130 140 150
WLSTTINRLN VEEYASIQEI ELQAKQWRAE NAKSLRPYHY NIPINEYLRD
160 170 180 190 200
NEIEVLDTGD NRWKSDTLQG LLPNFYHRTH TLIGAILFAV TSRLEIYSYE
210 220 230 240 250
QKKALRYLLR TIEKCYNEGY LEMSRDRKWS HTLPELRTLT FRLYNSKVIH
260 270 280 290 300
AACAMISLVH ANPIDYEFLC QVVAVYQIIP ANAAKLLSTP MTLYVGVATF
310 320 330 340 350
SSNQVASTGN ASECAPLQIE NNIYVSEAQK KEWAESFKSD PLNKSRMLKL
360 370 380 390 400
MNENLNTTLD KFSLIFNCFS STFHVGHRID NAQDAITDQV TATYTSNVNR
410 420 430 440 450
EMYDSYYYKL KQMLKEEIVQ YVEDHVAKQY KDVTAESLSA LANSSNGFSK
460 470 480 490 500
EVKFIDRNIK TTKKILHLDN DLITNDYSDL SKALSHGIPM GTRNVPARQT
510 520 530 540 550
RGIFILPWQV AAVQHTIAES LYKRAKKGAY QGSFAEAYTA KTASLTYGVL
560 570 580 590 600
AEDTSKATKI ILYTDVSQWD ASQHNTEPYR SAWINAIREA RAELKWRYDD
610 620 630 640 650
EPKVLEMNVL DSMIKIQEYL LNSNLVVASP GSQRPTKIIR YHGVASGEKT
660 670 680 690 700
TKIGNSFANV ALIETVLDFA KTDIPDLEIS HLRVDGDDNV VSINTSCTID
710 720 730 740 750
RLQRIIKEKY SSLNARVKAL ASYTGLEMAK RFIICGKIFE RGAIPIFTAE
760 770 780 790 800
RPYGTDVSIQ SMCGSSIYSS AVNAYRGFGD AYFSFMQDVL VPPSASTRIT
810 820 830 840 850
GRLRVLMSPV TLYATGPLSF EITPQGLGGR CRFFTQSAKL FTLFKMLTQT
860 870 880 890 900
AAVSITPDEI KKYAETVQFK KRTEVMIASM QRKLLVPAKA LARIIVDKEQ
910 920 930 940 950
QKTLGVPNVQ SQKNRSQVSK AIEILGVPER NDIVAKGYYP EELYSLIISH
960 970 980 990 1000
SVVVYTSHST PISIYRVNCE PVELLRSQLG IRIADSKPIA KPTNHLYDIV
1010 1020 1030 1040 1050
SGLSPIKISP SDLLTQAKKY DLSTYKGKRD YLSDLGLVGN TLKTYLASKM
1060 1070 1080 1090 1100
LFRDLLMSKY DDLYSTPGFG ATQLTTIPLD VTSAEKVFSI RLGLPPHLYE
1110 1120 1130 1140 1150
VVMLLLLYEY IHYVFSCKRT FTAQMHAISQ EQSAVITKNI ILMLDNIQLD

QVSFSDDAW
Length:1,159
Mass (Da):131,650
Last modified:June 1, 1994 - v1
Checksum:iE355F9BF79E225A8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M97203 Genomic RNA. No translation available.
PIRiA44280.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M97203 Genomic RNA. No translation available.
PIRiA44280.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

InterProiIPR001795. RNA-dir_pol_luteovirus.
IPR007097. RNA-dir_pol_reovirus.
[Graphical view]
PfamiPF02123. RdRP_4. 1 hit.
[Graphical view]
PROSITEiPS50523. RDRP_DSRNA_REO. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Sequence analysis of group B rotavirus gene 1 and definition of a rotavirus-specific sequence motif within the RNA polymerase gene."
    Eiden J.J., Hirshon C.
    Virology 192:154-160(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiRDRP_ROTGI
AccessioniPrimary (citable) accession number: P35942
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: June 1, 1994
Last modified: January 7, 2015
This is version 61 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

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.