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P10358

- POLR_TYMV

UniProt

P10358 - POLR_TYMV

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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

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 Publication

Catalytic activityi

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

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 – 9838ATP By 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
Complete GO annotation...

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

Chain Methyltransferase/Protease : Host chloroplast envelope 2 Publications
Chain Putative helicase : Host chloroplast envelope 2 Publications
Chain RNA-directed RNA polymerase : Host chloroplast envelope 2 Publications

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.

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 catalyticAdd
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

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

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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: May 14, 2014
This is version 84 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

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