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P10358 (POLR_TYMV) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 83. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
RNA replicase polyprotein
Alternative name(s):
206 kDa polyprotein

Cleaved into the following 3 chains:

  1. Methyltransferase/Protease
    EC=2.1.1.-
    EC=3.4.22.-
    Alternative name(s):
    98 kDa protein
    MET/PRO
  2. Putative helicase
    EC=3.6.4.-
    Alternative name(s):
    42 kDa protein
    HEL
  3. RNA-directed RNA polymerase
    EC=2.7.7.48
    Alternative name(s):
    66 kDa protein
    POL
OrganismTurnip yellow mosaic virus [Reference proteome]
Taxonomic identifier12154 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageTymoviralesTymoviridaeTymovirus
Virus hostBrassica [TaxID: 3705]
Cardamine lilacina [TaxID: 82359]

Protein attributes

Sequence length1844 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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. Ref.4

RNA-directed RNA polymerase is responsible for the replication and transcription of the genome. Ref.4

Catalytic activity

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

Subcellular location

Methyltransferase/Protease: Host chloroplast envelope Ref.2 Ref.3.

Putative helicase: Host chloroplast envelope Ref.2 Ref.3.

RNA-directed RNA polymerase: Host chloroplast envelope Ref.2 Ref.3.

Domain

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

Sequence similarities

Belongs to the tymovirus NS35 RNA replicase polyprotein family.

Contains 1 (+)RNA virus helicase ATP-binding domain.

Contains 1 (+)RNA virus helicase C-terminal domain.

Contains 1 RdRp catalytic domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 18441844RNA replicase polyprotein
PRO_0000222938
Chain1 – 879879Methyltransferase/Protease
PRO_0000418048
Chain880 – 1259380Putative helicase
PRO_0000418049
Chain1260 – 1844585RNA-directed RNA polymerase
PRO_0000418050

Regions

Domain946 – 1103158(+)RNA virus helicase ATP-binding
Domain1104 – 1236133(+)RNA virus helicase C-terminal
Domain1572 – 1678107RdRp catalytic
Nucleotide binding976 – 9838ATP By similarity
Region773 – 879107OTU-like
Compositional bias475 – 4784Poly-Leu
Compositional bias564 – 758195Pro-rich

Sites

Active site7831For protease activity
Site879 – 8802Cleavage; by viral protease
Site1259 – 12602Cleavage; by viral protease

Secondary structure

............................. 1844
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P10358 [UniParc].

Last modified August 1, 1992. Version 2.
Checksum: A016D758C83D128C

FASTA1,844206,641
        10         20         30         40         50         60 
MAFQLALDAL APTTHRDPSL HPILESTVDS IRSSIQTYPW SIPKELLPLL NSYGIPTSGL 

        70         80         90        100        110        120 
GTSHHPHAAH KTIETFLLCT HWSFQATTPS SVMFMKPSKF NKLAQVNSNF RELKNYRLHP 

       130        140        150        160        170        180 
NDSTRYPFTS PDLPVFPTIF MHDALMYYHP SQIMDLFLRK PNLERLYASL VVPPEAHLSD 

       190        200        210        220        230        240 
QSFYPKLYTY TTTRHTLHYV PEGHEAGSYN QPSDAHSWLR INSIRLGNHH LSVTILESWG 

       250        260        270        280        290        300 
PVHSLLIQRG TPPPDPSLQA PPTLMTSDLF RSYQEPRLDV VSFRIPDAIE LPQATFLQQP 

       310        320        330        340        350        360 
LRDRLVPRAV YNALFTYTRA VRTLRTSDPA AFVRMHSSKP DHDWVTSNAW DNLQTFALLN 

       370        380        390        400        410        420 
VPLRPNVVYH VLQSPIASLS LYLRQHWRRL TATAVPILSF LTLLQRFLPL PIPLAEVKSI 

       430        440        450        460        470        480 
TAFRRELYRK KEPHHPLDVF HLQHRVRNYH SAISAVRPAS PPHQKLPHAL QKAALLLLRP 

       490        500        510        520        530        540 
ISPLLTATPF FRSEQKSMLP NAELSWTLKR FALPWQASLV LLALSESSIL LHKLFSPPTL 

       550        560        570        580        590        600 
QAQHDTYHRH LHPGSYSLQW ERTPLSIPRT TAFLPFTPTT STAPPDRSEA SLPPAFASTF 

       610        620        630        640        650        660 
VPRPPPAASS PGAQPPTTTA APPTPIEPTQ RTHQNSDLAL ESSTSTEPPP PPIRSPDMTP 

       670        680        690        700        710        720 
SAPVLFPEIN SPRRFPPQLP ATPDLEPAHT PPPLSIPHQD PTDSADPLMG SHLLHHSLPA 

       730        740        750        760        770        780 
PPTHPLPSSQ LLPAPLTNDP TAIGPVLPFE ELHPRRYPEN TATFLTRLRS LPSNHLPQPT 

       790        800        810        820        830        840 
LNCLLSAVSD QTKVSEEHLW ESLQTILPDS QLSNEETNTL GLSTEHLTAL AHLYNFQATV 

       850        860        870        880        890        900 
YSDRGPILFG PSDTIKRIDI THTTGPPSHF SPGKRLLGSQ PSAKGHPSDP LIRAMKSFKV 

       910        920        930        940        950        960 
SGNYLPFSEA HNHPTSISHA KNLISNMKNG FDGVLSLLDV STGQRTGPTP KERIIQIDHY 

       970        980        990       1000       1010       1020 
LDTNPGKTTP VVHFAGFAGC GKTYPIQQLL KTKLFKDFRV SCPTTELRTE WKTAMELHGS 

      1030       1040       1050       1060       1070       1080 
QSWRFNTWES SILKSSRILV IDEIYKMPRG YLDLSILADP ALELVIILGD PLQGEYHSQS 

      1090       1100       1110       1120       1130       1140 
KDSSNHRLPS ETLRLLPYID MYCWWSYRIP QCIARLFQIH SFNAWQGVIG SVSTPHDQSP 

      1150       1160       1170       1180       1190       1200 
VLTNSHASSL TFNSLGYRSC TISSSQGLTF CDPAIIVLDN YTKWLSSANG LVALTRSRSG 

      1210       1220       1230       1240       1250       1260 
VQFMGPSSYV GGTNGSSAMF SDAFNNSLII MDRYFPSLFP QLKLITSPLT TRGPKLNGAT 

      1270       1280       1290       1300       1310       1320 
PSASPTHRSP NFHLPPHIPL SYDRDFVTVN PTLPDQGPET RLDTHFLPPS RLPLHFDLPP 

      1330       1340       1350       1360       1370       1380 
AITPPPVSTS VDPPQAKASP VYPGEFFDSL AAFFLPAHDP STREILHKDQ SSNQFPWFDR 

      1390       1400       1410       1420       1430       1440 
PFSLSCQPSS LISAKHAPNH DPTLLPASIN KRLRFRPSDS PHQITADDVV LGLQLFHSLC 

      1450       1460       1470       1480       1490       1500 
RAYSRQPNST VPFNPELFAE CISLNEYAQL SSKTQSTIVA NASRSDPDWR HTTVKIFAKA 

      1510       1520       1530       1540       1550       1560 
QHKVNDGSIF GSWKACQTLA LMHDYVILVL GPVKKYQRIF DNADRPPNIY SHCGKTPNQL 

      1570       1580       1590       1600       1610       1620 
RDWCQEHLTH STPKIANDYT AFDQSQHGES VVLEALKMKR LNIPSHLIQL HVHLKTNVST 

      1630       1640       1650       1660       1670       1680 
QFGPLTCMRL TGEPGTYDDN TDYNLAVIYS QYDVGSCPIM VSGDDSLIDH PLPTRHDWPS 

      1690       1700       1710       1720       1730       1740 
VLKRLHLRFK LELTSHPLFC GYYVGPAGCI RNPLALFCKL MIAVDDDALD DRRLSYLTEF 

      1750       1760       1770       1780       1790       1800 
TTGHLLGESL WHLLPETHVQ YQSACFDFFC RRCPRHEKML LDDSTPALSL LERITSSPRW 

      1810       1820       1830       1840 
LTKNAMYLLP AKLRLAITSL SQTQSFPESI EVSHAESELL HYVQ 

« Hide

References

[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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X07441 Genomic RNA. Translation: CAA30322.1. Sequence problems.
PIRS01956.
RefSeqNP_663297.1. NC_004063.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
4A5UX-ray2.00A728-879[»]
ProteinModelPortalP10358.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID951158.

Family and domain databases

InterProIPR027351. (+)RNA_virus_helicase_core_dom.
IPR008043. Peptidase_C21.
IPR007094. RNA-dir_pol_PSvirus.
IPR002588. Tymovirus_MeTrfase.
IPR001788. Tymovirus_RNA-dep_RNA_pol.
[Graphical view]
PfamPF05381. Peptidase_C21. 1 hit.
PF00978. RdRP_2. 1 hit.
PF01443. Viral_helicase1. 1 hit.
PF01660. Vmethyltransf. 1 hit.
[Graphical view]
PROSITEPS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry namePOLR_TYMV
AccessionPrimary (citable) accession number: P10358
Entry history
Integrated into UniProtKB/Swiss-Prot: July 1, 1989
Last sequence update: August 1, 1992
Last modified: April 16, 2014
This is version 83 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

PDB cross-references

Index of Protein Data Bank (PDB) cross-references