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P10358

- POLR_TYMV

UniProt

P10358 - POLR_TYMV

Protein

RNA replicase polyprotein

Gene
N/A
Organism
Turnip yellow mosaic virus
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 85 (01 Oct 2014)
      Sequence version 2 (01 Aug 1992)
      Previous versions | rss
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    Functioni

    Acts as a cysteine protease, methyltransferase and deubiquitinase. The cyteine protease activity cleaves the polyprotein giving rise to mature proteins. The methyltransferase domain is probably involved in viral RNA capping. The deubiquitylating activity counteracts the degradation of the viral polymerase mediated by the host ubiquitin-proteasome system. The polymerase is thus stabilized and infectivity is increased.1 Publication
    RNA-directed RNA polymerase is responsible for the replication and transcription of the genome.1 PublicationPROSITE-ProRule annotation

    Catalytic activityi

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

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei783 – 7831For protease activity
    Sitei879 – 8802Cleavage; by viral protease
    Sitei1259 – 12602Cleavage; by viral protease

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi976 – 9838ATPBy similarity

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. mRNA methyltransferase activity Source: InterPro
    3. peptidase activity Source: UniProtKB-KW
    4. RNA binding Source: InterPro
    5. RNA-directed RNA polymerase activity Source: UniProtKB-KW

    GO - Biological processi

    1. modulation by virus of host protein ubiquitination Source: UniProtKB-KW
    2. RNA processing Source: InterPro
    3. transcription, DNA-templated Source: InterPro
    4. viral RNA genome replication Source: InterPro

    Keywords - Molecular functioni

    Hydrolase, Methyltransferase, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Transferase

    Keywords - Biological processi

    Host-virus interaction, Modulation of host ubiquitin pathway by viral deubiquitinase, Modulation of host ubiquitin pathway by virus, Viral RNA replication

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    RNA replicase polyprotein
    Alternative name(s):
    206 kDa polyprotein
    Cleaved into the following 3 chains:
    Alternative name(s):
    98 kDa protein
    MET/PRO
    Alternative name(s):
    42 kDa protein
    HEL
    Alternative name(s):
    66 kDa protein
    POL
    OrganismiTurnip yellow mosaic virus
    Taxonomic identifieri12154 [NCBI]
    Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageTymoviralesTymoviridaeTymovirus
    Virus hostiBrassica [TaxID: 3705]
    Cardamine lilacina [TaxID: 82359]
    ProteomesiUP000000401: Genome

    Subcellular locationi

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 18441844RNA replicase polyproteinPRO_0000222938Add
    BLAST
    Chaini1 – 879879Methyltransferase/ProteasePRO_0000418048Add
    BLAST
    Chaini880 – 1259380Putative helicasePRO_0000418049Add
    BLAST
    Chaini1260 – 1844585RNA-directed RNA polymerasePRO_0000418050Add
    BLAST

    Structurei

    Secondary structure

    1
    1844
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi734 – 7374
    Beta strandi742 – 7487
    Helixi749 – 7524
    Beta strandi764 – 7696
    Helixi783 – 79210
    Helixi796 – 8038
    Turni804 – 8063
    Helixi809 – 8113
    Helixi815 – 8206
    Helixi824 – 83411
    Beta strandi836 – 8427
    Beta strandi845 – 8506
    Beta strandi855 – 8639
    Beta strandi865 – 8673
    Beta strandi869 – 8735

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4A5UX-ray2.00A728-879[»]
    ProteinModelPortaliP10358.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini946 – 1103158(+)RNA virus helicase ATP-bindingAdd
    BLAST
    Domaini1104 – 1236133(+)RNA virus helicase C-terminalAdd
    BLAST
    Domaini1572 – 1678107RdRp catalyticPROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni773 – 879107OTU-likeAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi475 – 4784Poly-Leu
    Compositional biasi564 – 758195Pro-richAdd
    BLAST

    Domaini

    The OTU-like region is responsible for the deubiquitination activity of this protein.

    Sequence similaritiesi

    Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

    Family and domain databases

    InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
    IPR008043. Peptidase_C21.
    IPR007094. RNA-dir_pol_PSvirus.
    IPR002588. Tymovirus_MeTrfase.
    IPR001788. Tymovirus_RNA-dep_RNA_pol.
    [Graphical view]
    PfamiPF05381. Peptidase_C21. 1 hit.
    PF00978. RdRP_2. 1 hit.
    PF01443. Viral_helicase1. 1 hit.
    PF01660. Vmethyltransf. 1 hit.
    [Graphical view]
    PROSITEiPS51657. PSRV_HELICASE. 1 hit.
    PS50507. RDRP_SSRNA_POS. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P10358-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAFQLALDAL APTTHRDPSL HPILESTVDS IRSSIQTYPW SIPKELLPLL     50
    NSYGIPTSGL GTSHHPHAAH KTIETFLLCT HWSFQATTPS SVMFMKPSKF 100
    NKLAQVNSNF RELKNYRLHP NDSTRYPFTS PDLPVFPTIF MHDALMYYHP 150
    SQIMDLFLRK PNLERLYASL VVPPEAHLSD QSFYPKLYTY TTTRHTLHYV 200
    PEGHEAGSYN QPSDAHSWLR INSIRLGNHH LSVTILESWG PVHSLLIQRG 250
    TPPPDPSLQA PPTLMTSDLF RSYQEPRLDV VSFRIPDAIE LPQATFLQQP 300
    LRDRLVPRAV YNALFTYTRA VRTLRTSDPA AFVRMHSSKP DHDWVTSNAW 350
    DNLQTFALLN VPLRPNVVYH VLQSPIASLS LYLRQHWRRL TATAVPILSF 400
    LTLLQRFLPL PIPLAEVKSI TAFRRELYRK KEPHHPLDVF HLQHRVRNYH 450
    SAISAVRPAS PPHQKLPHAL QKAALLLLRP ISPLLTATPF FRSEQKSMLP 500
    NAELSWTLKR FALPWQASLV LLALSESSIL LHKLFSPPTL QAQHDTYHRH 550
    LHPGSYSLQW ERTPLSIPRT TAFLPFTPTT STAPPDRSEA SLPPAFASTF 600
    VPRPPPAASS PGAQPPTTTA APPTPIEPTQ RTHQNSDLAL ESSTSTEPPP 650
    PPIRSPDMTP SAPVLFPEIN SPRRFPPQLP ATPDLEPAHT PPPLSIPHQD 700
    PTDSADPLMG SHLLHHSLPA PPTHPLPSSQ LLPAPLTNDP TAIGPVLPFE 750
    ELHPRRYPEN TATFLTRLRS LPSNHLPQPT LNCLLSAVSD QTKVSEEHLW 800
    ESLQTILPDS QLSNEETNTL GLSTEHLTAL AHLYNFQATV YSDRGPILFG 850
    PSDTIKRIDI THTTGPPSHF SPGKRLLGSQ PSAKGHPSDP LIRAMKSFKV 900
    SGNYLPFSEA HNHPTSISHA KNLISNMKNG FDGVLSLLDV STGQRTGPTP 950
    KERIIQIDHY LDTNPGKTTP VVHFAGFAGC GKTYPIQQLL KTKLFKDFRV 1000
    SCPTTELRTE WKTAMELHGS QSWRFNTWES SILKSSRILV IDEIYKMPRG 1050
    YLDLSILADP ALELVIILGD PLQGEYHSQS KDSSNHRLPS ETLRLLPYID 1100
    MYCWWSYRIP QCIARLFQIH SFNAWQGVIG SVSTPHDQSP VLTNSHASSL 1150
    TFNSLGYRSC TISSSQGLTF CDPAIIVLDN YTKWLSSANG LVALTRSRSG 1200
    VQFMGPSSYV GGTNGSSAMF SDAFNNSLII MDRYFPSLFP QLKLITSPLT 1250
    TRGPKLNGAT PSASPTHRSP NFHLPPHIPL SYDRDFVTVN PTLPDQGPET 1300
    RLDTHFLPPS RLPLHFDLPP AITPPPVSTS VDPPQAKASP VYPGEFFDSL 1350
    AAFFLPAHDP STREILHKDQ SSNQFPWFDR PFSLSCQPSS LISAKHAPNH 1400
    DPTLLPASIN KRLRFRPSDS PHQITADDVV LGLQLFHSLC RAYSRQPNST 1450
    VPFNPELFAE CISLNEYAQL SSKTQSTIVA NASRSDPDWR HTTVKIFAKA 1500
    QHKVNDGSIF GSWKACQTLA LMHDYVILVL GPVKKYQRIF DNADRPPNIY 1550
    SHCGKTPNQL RDWCQEHLTH STPKIANDYT AFDQSQHGES VVLEALKMKR 1600
    LNIPSHLIQL HVHLKTNVST QFGPLTCMRL TGEPGTYDDN TDYNLAVIYS 1650
    QYDVGSCPIM VSGDDSLIDH PLPTRHDWPS VLKRLHLRFK LELTSHPLFC 1700
    GYYVGPAGCI RNPLALFCKL MIAVDDDALD DRRLSYLTEF TTGHLLGESL 1750
    WHLLPETHVQ YQSACFDFFC RRCPRHEKML LDDSTPALSL LERITSSPRW 1800
    LTKNAMYLLP AKLRLAITSL SQTQSFPESI EVSHAESELL HYVQ 1844
    Length:1,844
    Mass (Da):206,641
    Last modified:August 1, 1992 - v2
    Checksum:iA016D758C83D128C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X07441 Genomic RNA. Translation: CAA30322.1. Sequence problems.
    PIRiS01956.
    RefSeqiNP_663297.1. NC_004063.1.

    Genome annotation databases

    GeneIDi951158.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X07441 Genomic RNA. Translation: CAA30322.1 . Sequence problems.
    PIRi S01956.
    RefSeqi NP_663297.1. NC_004063.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4A5U X-ray 2.00 A 728-879 [» ]
    ProteinModelPortali P10358.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 951158.

    Family and domain databases

    InterProi IPR027351. (+)RNA_virus_helicase_core_dom.
    IPR008043. Peptidase_C21.
    IPR007094. RNA-dir_pol_PSvirus.
    IPR002588. Tymovirus_MeTrfase.
    IPR001788. Tymovirus_RNA-dep_RNA_pol.
    [Graphical view ]
    Pfami PF05381. Peptidase_C21. 1 hit.
    PF00978. RdRP_2. 1 hit.
    PF01443. Viral_helicase1. 1 hit.
    PF01660. Vmethyltransf. 1 hit.
    [Graphical view ]
    PROSITEi PS51657. PSRV_HELICASE. 1 hit.
    PS50507. RDRP_SSRNA_POS. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Overlapping open reading frames revealed by complete nucleotide sequencing of turnip yellow mosaic virus genomic RNA."
      Morch M.D., Boyer J.C., Haenni A.L.
      Nucleic Acids Res. 16:6157-6173(1988) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    2. "Detection and subcellular localization of the turnip yellow mosaic virus 66K replication protein in infected cells."
      Prod'homme D., Le Panse S., Drugeon G., Jupin I.
      Virology 281:88-101(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION.
    3. "Proteolytic processing of turnip yellow mosaic virus replication proteins and functional impact on infectivity."
      Jakubiec A., Drugeon G., Camborde L., Jupin I.
      J. Virol. 81:11402-11412(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEOLYTIC PROCESSING OF POLYPROTEIN, SUBCELLULAR LOCATION.
    4. "A viral deubiquitylating enzyme targets viral RNA-dependent RNA polymerase and affects viral infectivity."
      Chenon M., Camborde L., Cheminant S., Jupin I.
      EMBO J. 31:741-753(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION OF METHYLTRANSFERASE/PROTEASE.

    Entry informationi

    Entry nameiPOLR_TYMV
    AccessioniPrimary (citable) accession number: P10358
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 1, 1989
    Last sequence update: August 1, 1992
    Last modified: October 1, 2014
    This is version 85 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

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3