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A7J3A6

- RDRP_ROTHD

UniProt

A7J3A6 - RDRP_ROTHD

Protein

RNA-directed RNA polymerase

Gene
N/A
Organism
Rotavirus A (strain Human/United States/DS-1/1976 G2-P1B[4]-I2-R2-C2-M2-A2-N2-T2-E2-H2) (RV-A) (Rotavirus A (strain DS1))
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 28 (01 Oct 2014)
      Sequence version 1 (11 Sep 2007)
      Previous versions | rss
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    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 dsRNA formation. To do so, the polymerase specifically recognizes and binds 4 bases 5'-UGUG-3' in the conserved 3'-sequence of plus-strand RNA templates. VP2 presumably activates the autoinhibited VP1-RNA complex to coordinate packaging and genome replication. 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

    Cofactori

    Magnesium.Curated

    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

    Keywords - Molecular functioni

    Nucleotidyltransferase, RNA-directed RNA polymerase, Transferase

    Keywords - Biological processi

    Viral RNA replication

    Keywords - Ligandi

    Magnesium, 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 A (strain Human/United States/DS-1/1976 G2-P1B[4]-I2-R2-C2-M2-A2-N2-T2-E2-H2) (RV-A) (Rotavirus A (strain DS1))
    Taxonomic identifieri10950 [NCBI]
    Taxonomic lineageiVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
    Virus hostiHomo sapiens (Human) [TaxID: 9606]
    ProteomesiUP000001457: Genome

    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

    Keywords - Cellular componenti

    Virion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 10881088RNA-directed RNA polymerasePRO_0000375231Add
    BLAST

    Interactioni

    Subunit structurei

    Interacts with VP3 Potential. Interacts with VP2; this interaction activates VP1. Interacts with NSP5; this interaction is probably necessary for the formation of functional virus factories. Interacts with NSP2; this interaction is weak By similarity.By similarityCurated

    Structurei

    3D structure databases

    ProteinModelPortaliA7J3A6.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini501 – 687187RdRp 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.
    IPR022071. Rotavirus_VP1.
    [Graphical view]
    PfamiPF02123. RdRP_4. 1 hit.
    PF12289. Rotavirus_VP1. 1 hit.
    [Graphical view]
    PROSITEiPS50523. RDRP_DSRNA_REO. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    A7J3A6-1 [UniParc]FASTAAdd to Basket

    « Hide

    MGKYNLILSE YLSFIYNSQS AVQIPIYYSS NSELESRCIE FHSKCLENSK     50
    NGLSLKKLFS EYSDVIENAT LLSILSYSYD KYNAVERKLV KYAKSKPLEA 100
    DLTLNELDYE NNKITSELFP TEEEYTDSLM DPAILTSLSS NLNAVMFWLE 150
    KHENDTAEKL KIYKRRLDLF SIVASTINKY GVPRHNAKYR YEYDVMKDKP 200
    YYLVTWANSS IEMLMSVFSH EDYLIAKELI VLSYSNRSTL AKLVSSPMSI 250
    LVALVDINGT FITNEELELE FSNKYVRAIV PDQTFDELKQ MLDNMRKAGL 300
    VDIPKMIQDW LVDCSIERFP LMAKIYSWSF HVGFRKQKML DAALDQLKTE 350
    YTENVDDEMY REYTMLIRDE VVKMLEESVK HDDHLLQDSE LAGLLSMSSA 400
    SNGESRQLKF GRKTIFSTKK NMHVMDDMAN GRYTPGIIPP VNADKPIPLG 450
    RRDVPGRRTR IIFILPYEYF IAQHAVVEKM LIYAKHTREY AEFYSQSNQL 500
    LSYGDVTRFL SNNSMVLYTD VSQWDSSQHN TQPFRKGIIM GLDILANMTN 550
    DARVIQTLNL YKQTQINLMD SYVQIPDGNV IKKIQYGAVA SGEKQTKAAN 600
    SIANLALIKT VLSRISNKYS FITKIIRVDG DDNYAVLQFN TEVTKQMVQD 650
    VSNDVRETYA RMNAKVKALV STVGIEIAKR YIAGGKIFFR AGINLLNNEK 700
    RGQSTQWDQA AVLYSNYIVN RLRGFETDRE FILTKIMQMT SVAITGSLRL 750
    FPSERVLTTN STFKVFDSED FIIEYGTTDD EVYIQRAFMS LSSQKSGIAD 800
    EISASSTFKN YVSKLSEQLL FSKNNIVSRG IALTEKAKLN SYAPISLEKR 850
    RAQISALLTM LQKPVTFKSS KITINDILKD IKPFFTLSEA HLPMQYQKFM 900
    PNLPENVQYI IQCIGSRTYQ IEDDGSKSAI SRLISKYSVY KPSIEELYKV 950
    ISLHENEIQL YLISLGIPKI DADTYVGSKI YSQDKYRILE SYVYNLLSIN 1000
    YGCYQLFDFN SPDLEKLIRI PFKGKIPAVT FILHLYAKLE VINYAIKNGS 1050
    WISLFCNYPK SEMIKLWKKM WNITSLRSPY TNANFFQD 1088
    Length:1,088
    Mass (Da):125,156
    Last modified:September 11, 2007 - v1
    Checksum:iAE1F50EC6A41CD2F
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    DQ870505 Genomic RNA. Translation: ABI58291.1.
    EF583025 Genomic RNA. Translation: ABU87834.1.
    AF106302 Genomic RNA. Translation: AAD47316.1.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    DQ870505 Genomic RNA. Translation: ABI58291.1 .
    EF583025 Genomic RNA. Translation: ABU87834.1 .
    AF106302 Genomic RNA. Translation: AAD47316.1 .

    3D structure databases

    ProteinModelPortali A7J3A6.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Family and domain databases

    InterProi IPR001795. RNA-dir_pol_luteovirus.
    IPR007097. RNA-dir_pol_reovirus.
    IPR022071. Rotavirus_VP1.
    [Graphical view ]
    Pfami PF02123. RdRP_4. 1 hit.
    PF12289. Rotavirus_VP1. 1 hit.
    [Graphical view ]
    PROSITEi PS50523. RDRP_DSRNA_REO. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Full genome-based classification of rotaviruses reveals a common origin between human Wa-Like and porcine rotavirus strains and human DS-1-like and bovine rotavirus strains."
      Matthijnssens J., Ciarlet M., Heiman E.M., Arijs I., Delbeke T., McDonald S.M., Palombo E.A., Iturriza-Gomara M., Maes P., Patton J.T., Rahman M., Van Ranst M.
      J. Virol. 82:3204-3219(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    2. "Sequence analysis of VP1 and VP7 genes suggests occurrence of a reassortant of G2 rotavirus responsible for an epidemic of gastroenteritis."
      Zao C.L., Yu W.N., Kao C.L., Taniguchi K., Lee C.Y., Lee C.N.
      J. Gen. Virol. 80:1407-1415(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 10-150.

    Entry informationi

    Entry nameiRDRP_ROTHD
    AccessioniPrimary (citable) accession number: A7J3A6
    Secondary accession number(s): B1NKR7, Q9QRZ9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 26, 2009
    Last sequence update: September 11, 2007
    Last modified: October 1, 2014
    This is version 28 of the entry and version 1 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