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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 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
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

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 – 7374Combined sources
Beta strandi742 – 7487Combined sources
Helixi749 – 7524Combined sources
Beta strandi764 – 7696Combined sources
Helixi783 – 79210Combined sources
Helixi796 – 8038Combined sources
Turni804 – 8063Combined sources
Helixi809 – 8113Combined sources
Helixi815 – 8206Combined sources
Helixi824 – 83411Combined sources
Beta strandi836 – 8427Combined sources
Beta strandi845 – 8506Combined sources
Beta strandi855 – 8639Combined sources
Beta strandi865 – 8673Combined sources
Beta strandi869 – 8735Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
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

        10         20         30         40         50
MAFQLALDAL APTTHRDPSL HPILESTVDS IRSSIQTYPW SIPKELLPLL
60 70 80 90 100
NSYGIPTSGL GTSHHPHAAH KTIETFLLCT HWSFQATTPS SVMFMKPSKF
110 120 130 140 150
NKLAQVNSNF RELKNYRLHP NDSTRYPFTS PDLPVFPTIF MHDALMYYHP
160 170 180 190 200
SQIMDLFLRK PNLERLYASL VVPPEAHLSD QSFYPKLYTY TTTRHTLHYV
210 220 230 240 250
PEGHEAGSYN QPSDAHSWLR INSIRLGNHH LSVTILESWG PVHSLLIQRG
260 270 280 290 300
TPPPDPSLQA PPTLMTSDLF RSYQEPRLDV VSFRIPDAIE LPQATFLQQP
310 320 330 340 350
LRDRLVPRAV YNALFTYTRA VRTLRTSDPA AFVRMHSSKP DHDWVTSNAW
360 370 380 390 400
DNLQTFALLN VPLRPNVVYH VLQSPIASLS LYLRQHWRRL TATAVPILSF
410 420 430 440 450
LTLLQRFLPL PIPLAEVKSI TAFRRELYRK KEPHHPLDVF HLQHRVRNYH
460 470 480 490 500
SAISAVRPAS PPHQKLPHAL QKAALLLLRP ISPLLTATPF FRSEQKSMLP
510 520 530 540 550
NAELSWTLKR FALPWQASLV LLALSESSIL LHKLFSPPTL QAQHDTYHRH
560 570 580 590 600
LHPGSYSLQW ERTPLSIPRT TAFLPFTPTT STAPPDRSEA SLPPAFASTF
610 620 630 640 650
VPRPPPAASS PGAQPPTTTA APPTPIEPTQ RTHQNSDLAL ESSTSTEPPP
660 670 680 690 700
PPIRSPDMTP SAPVLFPEIN SPRRFPPQLP ATPDLEPAHT PPPLSIPHQD
710 720 730 740 750
PTDSADPLMG SHLLHHSLPA PPTHPLPSSQ LLPAPLTNDP TAIGPVLPFE
760 770 780 790 800
ELHPRRYPEN TATFLTRLRS LPSNHLPQPT LNCLLSAVSD QTKVSEEHLW
810 820 830 840 850
ESLQTILPDS QLSNEETNTL GLSTEHLTAL AHLYNFQATV YSDRGPILFG
860 870 880 890 900
PSDTIKRIDI THTTGPPSHF SPGKRLLGSQ PSAKGHPSDP LIRAMKSFKV
910 920 930 940 950
SGNYLPFSEA HNHPTSISHA KNLISNMKNG FDGVLSLLDV STGQRTGPTP
960 970 980 990 1000
KERIIQIDHY LDTNPGKTTP VVHFAGFAGC GKTYPIQQLL KTKLFKDFRV
1010 1020 1030 1040 1050
SCPTTELRTE WKTAMELHGS QSWRFNTWES SILKSSRILV IDEIYKMPRG
1060 1070 1080 1090 1100
YLDLSILADP ALELVIILGD PLQGEYHSQS KDSSNHRLPS ETLRLLPYID
1110 1120 1130 1140 1150
MYCWWSYRIP QCIARLFQIH SFNAWQGVIG SVSTPHDQSP VLTNSHASSL
1160 1170 1180 1190 1200
TFNSLGYRSC TISSSQGLTF CDPAIIVLDN YTKWLSSANG LVALTRSRSG
1210 1220 1230 1240 1250
VQFMGPSSYV GGTNGSSAMF SDAFNNSLII MDRYFPSLFP QLKLITSPLT
1260 1270 1280 1290 1300
TRGPKLNGAT PSASPTHRSP NFHLPPHIPL SYDRDFVTVN PTLPDQGPET
1310 1320 1330 1340 1350
RLDTHFLPPS RLPLHFDLPP AITPPPVSTS VDPPQAKASP VYPGEFFDSL
1360 1370 1380 1390 1400
AAFFLPAHDP STREILHKDQ SSNQFPWFDR PFSLSCQPSS LISAKHAPNH
1410 1420 1430 1440 1450
DPTLLPASIN KRLRFRPSDS PHQITADDVV LGLQLFHSLC RAYSRQPNST
1460 1470 1480 1490 1500
VPFNPELFAE CISLNEYAQL SSKTQSTIVA NASRSDPDWR HTTVKIFAKA
1510 1520 1530 1540 1550
QHKVNDGSIF GSWKACQTLA LMHDYVILVL GPVKKYQRIF DNADRPPNIY
1560 1570 1580 1590 1600
SHCGKTPNQL RDWCQEHLTH STPKIANDYT AFDQSQHGES VVLEALKMKR
1610 1620 1630 1640 1650
LNIPSHLIQL HVHLKTNVST QFGPLTCMRL TGEPGTYDDN TDYNLAVIYS
1660 1670 1680 1690 1700
QYDVGSCPIM VSGDDSLIDH PLPTRHDWPS VLKRLHLRFK LELTSHPLFC
1710 1720 1730 1740 1750
GYYVGPAGCI RNPLALFCKL MIAVDDDALD DRRLSYLTEF TTGHLLGESL
1760 1770 1780 1790 1800
WHLLPETHVQ YQSACFDFFC RRCPRHEKML LDDSTPALSL LERITSSPRW
1810 1820 1830 1840
LTKNAMYLLP AKLRLAITSL SQTQSFPESI EVSHAESELL HYVQ
Length:1,844
Mass (Da):206,641
Last modified:August 1, 1992 - v2
Checksum:iA016D758C83D128C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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:
PDBei
RCSB PDBi
PDBji
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: November 26, 2014
This is version 86 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