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P09814 (POLG_TVMV) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 127. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Genome polyprotein

Cleaved into the following 10 chains:

  1. P1 proteinase
    EC=3.4.-.-
    Alternative name(s):
    N-terminal protein
  2. Helper component proteinase
    Short name=HC-pro
    EC=3.4.22.45
  3. Protein P3
  4. 6 kDa protein 1
    Short name=6K1
  5. Cytoplasmic inclusion protein
    Short name=CI
    EC=3.6.4.-
  6. 6 kDa protein 2
    Short name=6K2
  7. Viral genome-linked protein
    Alternative name(s):
    VPg
  8. Nuclear inclusion protein A
    Short name=NI-a
    Short name=NIa
    EC=3.4.22.44
    Alternative name(s):
    49 kDa proteinase
    Short name=49 kDa-Pro
    NIa-pro
  9. Nuclear inclusion protein B
    Short name=NI-b
    Short name=NIb
    EC=2.7.7.48
    Alternative name(s):
    RNA-directed RNA polymerase
  10. Capsid protein
    Short name=CP
    Alternative name(s):
    Coat protein
OrganismTobacco vein mottling virus (TVMV) [Complete proteome]
Taxonomic identifier12228 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stagePotyviridaePotyvirus
Virus hostNicotiana tabacum (Common tobacco) [TaxID: 4097]
Rumex [TaxID: 3618]

Protein attributes

Sequence length3023 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Capsid protein: involved in aphid transmission, cell-to-cell and systemis movement, encapsidation of the viral RNA and in the regulation of viral RNA amplification.

Nuclear inclusion protein B: an RNA-dependent RNA polymerase that plays an essential role in the virus replication.

Helper component proteinase: required for aphid transmission and also has proteolytic activity. Only cleaves a Gly-Gly dipeptide at its own C-terminus. Interacts with virions and aphid stylets. Acts as a suppressor of RNA-mediated gene silencing, also known as post-transcriptional gene silencing (PTGS), a mechanism of plant viral defense that limits the accumulation of viral RNAs. May have RNA-binding activity By similarity.

Cytoplasmic inclusion protein: has helicase activity. It may be involved in replication.

Both 6K peptides are indispensable for virus replication By similarity.

Nuclear inclusion protein A: has RNA-binding and proteolytic activities.

Catalytic activity

Hydrolyzes glutaminyl bonds, and activity is further restricted by preferences for the amino acids in P6 - P1' that vary with the species of potyvirus, e.g. Glu-Xaa-Xaa-Tyr-Xaa-Gln-|-(Ser or Gly) for the enzyme from tobacco etch virus. The natural substrate is the viral polyprotein, but other proteins and oligopeptides containing the appropriate consensus sequence are also cleaved.

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

Hydrolyzes a Gly-|-Gly bond at its own C-terminus, commonly in the sequence -Tyr-Xaa-Val-Gly-|-Gly, in the processing of the potyviral polyprotein.

Subcellular location

Capsid protein: Virion Potential.

Domain

The N-terminus of helper component proteinase is involved in interaction with stylets. The central part is involved in interaction with virions and the C-terminus is involved in cell-to cell movement of the virus.

Post-translational modification

VPg is uridylylated by the polymerase and is covalently attached to the 5'-end of the genomic RNA. This uridylylated form acts as a nucleotide-peptide primer for the polymerase.

Potyviral RNA is expressed as two polyproteins which undergo post-translational proteolytic processing. Genome polyprotein is processed by NIa-pro, P1 and HC-pro proteinases resulting in the production of at least ten individual proteins. P3N-PIPO polyprotein is cleaved by P1 and HC-pro proteinases resulting in the production of three individual proteins. The P1 proteinase and the HC-pro cleave only their respective C-termini autocatalytically. 6K1 is essential for proper proteolytic separation of P3 from CI By similarity.

Sequence similarities

Belongs to the potyviridae genome polyprotein family.

Contains 1 helicase ATP-binding domain.

Contains 1 helicase C-terminal domain.

Contains 1 peptidase C4 domain.

Contains 1 peptidase C6 domain.

Contains 1 peptidase S30 domain.

Contains 1 RdRp catalytic domain.

Alternative products

This entry describes 2 isoforms produced by ribosomal frameshifting. [Align] [Select]
Isoform Genome polyprotein (identifier: P09814-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Note: Produced by conventional translation.
Isoform P3N-PIPO polyprotein (identifier: P0CK10-1)

The sequence of this isoform can be found in the external entry P0CK10.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by -1 ribosomal frameshifting in P3 ORF.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 30233023Genome polyprotein
PRO_0000420031
Chain1 – 274274P1 proteinase Potential
PRO_0000040483
Chain275 – 731457Helper component proteinase Potential
PRO_0000040484
Chain732 – 1078347Protein P3 By similarity
PRO_0000040485
Chain1079 – 1130526 kDa protein 1 By similarity
PRO_0000040486
Chain1131 – 1765635Cytoplasmic inclusion protein By similarity
PRO_0000040487
Chain1766 – 1818536 kDa protein 2 By similarity
PRO_0000040488
Chain1819 – 2001183Viral genome-linked protein By similarity
PRO_0000040489
Chain2002 – 2242241Nuclear inclusion protein A By similarity
PRO_0000040490
Chain2243 – 2758516Nuclear inclusion protein B By similarity
PRO_0000040491
Chain2759 – 3023265Capsid protein By similarity
PRO_0000040492

Regions

Domain1202 – 1354153Helicase ATP-binding
Domain1367 – 1532166Helicase C-terminal
Domain2002 – 2218217Peptidase C4
Domain2484 – 2608125RdRp catalytic
Nucleotide binding1215 – 12228ATP Potential
Motif325 – 3284Involved in interaction with stylet and aphid transmission By similarity
Motif583 – 5853Involved in virions binding and aphid transmission By similarity
Motif1304 – 13074DEFH box
Motif1856 – 18638Nuclear localization signal Potential

Sites

Active site1831For P1 proteinase activity By similarity
Active site1921For P1 proteinase activity Potential
Active site2251For P1 proteinase activity By similarity
Active site6171For helper component proteinase activity By similarity
Active site6901For helper component proteinase activity By similarity
Active site20471For nuclear inclusion protein A activity By similarity
Active site20821For nuclear inclusion protein A activity By similarity
Active site21521For nuclear inclusion protein A activity By similarity
Site274 – 2752Cleavage; by P1 proteinase Potential
Site731 – 7322Cleavage; by HC-pro Potential
Site1078 – 10792Cleavage; by NIa-pro By similarity
Site1130 – 11312Cleavage; by NIa-pro By similarity
Site1765 – 17662Cleavage; by NIa-pro By similarity
Site1818 – 18192Cleavage; by NIa-pro By similarity
Site2001 – 20022Cleavage; by NIa-pro By similarity
Site2242 – 22432Cleavage; by NIa-pro By similarity
Site2758 – 27592Cleavage; by NIa-pro By similarity

Amino acid modifications

Modified residue18781O-(5'-phospho-RNA)-tyrosine

Sequences

Sequence LengthMass (Da)Tools
Isoform Genome polyprotein [UniParc].

Last modified May 30, 2000. Version 2.
Checksum: 299FDED15C0E5B87

FASTA3,023342,285
        10         20         30         40         50         60 
MAATMIFGSF THDLLGKAMS TIHSAVTAEK DIFSSIKERL ERKRHGKICR MKNGSIYIKA 

        70         80         90        100        110        120 
ASSTKVEKIN AAAKKLADDK AAFLKAQPTI VDKIIVNEKI QVVEAEEVHK REDVQTVFFK 

       130        140        150        160        170        180 
KTKKRAPKLR ATCSSSGLDN LYNAVANIAK ASSLRVEVIH KKRVCGEFKQ TRFGRALFID 

       190        200        210        220        230        240 
VAHAKGHRRR IDCRMHRREQ RTMHMFMRKT TKTEVRSKHL RKGDSGIVLL TQKIKGHLSG 

       250        260        270        280        290        300 
VRDEFFIVRG TCDDSLLEAR ARFSQSITLR ATHFSTGDIF WKGFNASFQE QKAIGLDHTC 

       310        320        330        340        350        360 
TSDLPVEACG HVAALMCQSL FPCGKITCKR CIANLSNLDF DTFSELQGDR AMRILDVMRA 

       370        380        390        400        410        420 
RFPSFTHTIR FLHDLFTQRR VTNPNTAAFR EILRLIGDRN EAPFAHVNRL NEILLLGSKA 

       430        440        450        460        470        480 
NPDSLAKASD SLLELARYLN NRTENIRNGS LKHFRNKISS KAHSNLALSC DNQLDQNGNF 

       490        500        510        520        530        540 
LWGLAGIAAK RFLNNYFETI DPEQGYDKYV IRKNPNGERK LAIGNFIIST NLEKLRDQLE 

       550        560        570        580        590        600 
GESIARVGIT EECVSRKDGN YRYPCCCVTL EDGSPMYSEL KMPTKNHLVI GNSGDPKYLD 

       610        620        630        640        650        660 
LPGEISNLMY IAKEGYCYIN IFLAMLVNVD EANAKDFTKR VRDESVQKLG KWPSLIDVAT 

       670        680        690        700        710        720 
ECALLSTYYP AAASAELPRL LVDHAQKTIH VVDSYGSLNT GYHILKANTV SQLEKFASNT 

       730        740        750        760        770        780 
LESPMAQYKV GGLVYSENND ASAVKALTQA IFRPDVLSEL IEKEPYLMVF ALVSPGILMA 

       790        800        810        820        830        840 
MSNSGALEFG ISKWISSDHS LVRMASILKT LASKVSVADT LALQKHIMRQ NANFLCGELI 

       850        860        870        880        890        900 
NGFQKKKSYT HATRFLLMIS EENEMDDPVL NAGYRVLEAS SHEIMEKTYL ALLETSWSDL 

       910        920        930        940        950        960 
SLYGKFKSIW FTRKHFGRYK AELFPKEQTD LQGRYSNSLR FHYQSTLKRL RNKGSLCRER 

       970        980        990       1000       1010       1020 
FLESISSARR RTTCAVFSLL HKAFPDVLKF INTLVIVSLS MQIYYMLVAI IHEHRAAKIK 

      1030       1040       1050       1060       1070       1080 
SAQLEERVLE DKTMLLYDDF KAKLPEGSFE EFLEYTRQRD KEVYEYLMME TTEIVEFQAK 

      1090       1100       1110       1120       1130       1140 
NTGQASLERI IAFVSLTLML FDNERSDCVY KILTKFKGIL GSVENNVRFQ SLDTIVPTQE 

      1150       1160       1170       1180       1190       1200 
EKNMVIDFEL DSDTAHTPQM QEQTFSDWWS NQIANNRVVP HYRTEGYFMQ FTRNTASAVS 

      1210       1220       1230       1240       1250       1260 
HQIAHNEHKD IILMGAVGSG KSTGLPTNLC KFGGVLLLEP TRPLAENVTK QMRGSPFFAS 

      1270       1280       1290       1300       1310       1320 
PTLRMRNLST FGSSPITVMT TGFALHFFAN NVKEFDRYQF IIFDEFHVLD SNAIAFRNLC 

      1330       1340       1350       1360       1370       1380 
HEYSYNGKII KVSATPPGRE CDLTTQYPVE LLIEEQLSLR DFVDAQGTDA HADVVKKGDN 

      1390       1400       1410       1420       1430       1440 
ILVYVASYNE VDQLSKMLNE RGFLVTKVDG RTMKLGGVEI ITKGSSIKKH FIVATNIIEN 

      1450       1460       1470       1480       1490       1500 
GVTLDVDVVV DFGLKVVPNL DSDNRLVSYC KIPISLGERI QRFGRVGRNK PGVALRIGET 

      1510       1520       1530       1540       1550       1560 
IKGLVEIPSM IATEAAFLCF VYGLPVTTQN VSTSILSQVS VRQARVMCQF ELPIFYTAHL 

      1570       1580       1590       1600       1610       1620 
VRYDGAMHPA IHNALKRFKL RDSEINLNTL AIPTSSSKTW YTGKCYKQLV GRLDIPDEIK 

      1630       1640       1650       1660       1670       1680 
IPFYTKEVPE KVPEQIWDVM VKFSSDAGFG RMTSAAACKV AYTLQTDIHS IQRTVQIIDR 

      1690       1700       1710       1720       1730       1740 
LLENEMKKRN HFNLVVNQSC SSHFMSLSSI MASLRAHYAK NHTGQNIEIL QKAKAQLLEF 

      1750       1760       1770       1780       1790       1800 
SNLAIDPSTT EALRDFGYLE AVRFQSESEM ARGLKLSGHW KWSLISRDLI VVSGVGIGLG 

      1810       1820       1830       1840       1850       1860 
CMLWQFFKEK MHEPVKFQGK SRRRLQFRKA RDDKMGYIMH GEGDTIEHFF GAAYTKKGKS 

      1870       1880       1890       1900       1910       1920 
KGKTHGAGTK AHKFVNMYGV SPDEYSYVRY LDPVTGATLD ESPMTDLNIV QEHFGEIRRE 

      1930       1940       1950       1960       1970       1980 
AILADAMSPQ QRNKGIQAYF VRNSTMPILK VDLTPHIPLK VCESNNIAGF PEREGELRRT 

      1990       2000       2010       2020       2030       2040 
GPTETLPFDA LPPEKQEVAF ESKALLKGVR DFNPISACVW LLENSSDGHS ERLFGIGFGP 

      2050       2060       2070       2080       2090       2100 
YIIANQHLFR RNNGELTIKT MHGEFKVKNS TQLQMKPVEG RDIIVIKMAK DFPPFPQKLK 

      2110       2120       2130       2140       2150       2160 
FRQPTIKDRV CMVSTNFQQK SVSSLVSESS HIVHKEDTSF WQHWITTKDG QCGSPLVSII 

      2170       2180       2190       2200       2210       2220 
DGNILGIHSL THTTNGSNYF VEFPEKFVAT YLDAADGWCK NWKFNADKIS WGSFTLVEDA 

      2230       2240       2250       2260       2270       2280 
PEDDFMAKKT VAAIMDDLVR TQGEKRKWML EAAHTNIQPV AHLQSQLVTK HIVKGRCKMF 

      2290       2300       2310       2320       2330       2340 
ALYLQENADA RDFFKSFMGA YGPSHLNKEA YIKDIMKYSK QIVVGSVDCD TFESSLKVLS 

      2350       2360       2370       2380       2390       2400 
RKMKEWGFEN LEYVTDEQTI KNALNMDAAV GALYSGKKKQ YFEDLSDDAV ANLVQKSCLR 

      2410       2420       2430       2440       2450       2460 
LFKNKLGVWN GSLKAELRPF EKLIENKTRT FTAAPIETLL GGKVCVDDFN NHFYSKHIQC 

      2470       2480       2490       2500       2510       2520 
PWSVGMTKFY GGWNELLGKL PDGWVYCDAD GSQFDSSLSP YLINAVLRLR LSSMEEWDVG 

      2530       2540       2550       2560       2570       2580 
QKMLQNLYTE IVYTPISTPD GTIVKKFKGN NSGQPSTVVD NTLMVVLAMY YALSKLGVDI 

      2590       2600       2610       2620       2630       2640 
NSQEDVCKFF ANGDDLIIAI SPELEHVLDG FQQHFSDLGL NYDFSSRTRD KKELWFMSHR 

      2650       2660       2670       2680       2690       2700 
ALSKDGILIP KLEPERIVSI LEWDRSAEPH HRLEAICASM IEAWGYTDLL QNIRRFYKWT 

      2710       2720       2730       2740       2750       2760 
IEQEPYRSLA EQGLAPYLSE VALRRLYTSQ IATDNELTDY YKEILANNEF LRETVRFQSD 

      2770       2780       2790       2800       2810       2820 
TVDAGKDKAR DQKLADKPTL AIDRTKDKDV NTGTSGTFSI PRLKKAAMNM KLPKVGGSSV 

      2830       2840       2850       2860       2870       2880 
VNLDHLLTYK PAQEFVVNTR ATHSQFKAWH TNVMAELELN EEQMKIVLNG FMIWCIENGT 

      2890       2900       2910       2920       2930       2940 
SPNISGVWTM MDGDEQVEYP IEPMVKHANP SLRQIMKHFS NLAEAYIRMR NSEQVYIPRY 

      2950       2960       2970       2980       2990       3000 
GLQRGLVDRN LAPFAFDFFE VNGATPVRAR EAHAQMKAAA LRNSQQRMFC LDGSVSGQEE 

      3010       3020 
NTERHTVDDV NAQMHHLLGV KGV 

« Hide

Isoform P3N-PIPO polyprotein [UniParc].

See P0CK10.

References

[1]"The nucleotide sequence of tobacco vein mottling virus RNA."
Domier L.L., Franklin K.M., Shahabuddin M., Hellmann G.M., Overmeyer J.H., Hiremath S.T., Siaw M.F.E., Lomonossoff G.P., Shaw J.G., Rhoads R.E.
Nucleic Acids Res. 14:5417-5430(1986) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]Shaw J.G.
Submitted (NOV-1997) to the EMBL/GenBank/DDBJ databases
Cited for: SEQUENCE REVISION.
[3]"A tyrosine residue in the small nuclear inclusion protein of tobacco vein mottling virus links the VPg to the viral RNA."
Murphy J.F., Rychlik W., Rhoads R.E., Hunt A.G., Shaw J.G.
J. Virol. 65:511-513(1991) [PubMed] [Europe PMC] [Abstract]
Cited for: PROTEIN SEQUENCE OF 1874-1888, COVALENT RNA-LINKAGE OF VPG, URIDYLYLATION AT TYR-1878.
[4]"Potyvirus proteins: a wealth of functions."
Urcuqui-Inchima S., Haenni A.L., Bernardi F.
Virus Res. 74:157-175(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: REVIEW.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X04083 Genomic RNA. Translation: CAA27720.1.
PIRGNVSTV. A23647.
RefSeqNP_056867.1. NC_001768.1.

3D structure databases

ProteinModelPortalP09814.
SMRP09814. Positions 2010-2221.
ModBaseSearch...
MobiDBSearch...

Protein family/group databases

MEROPSC04.003.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID1494056.

Family and domain databases

Gene3D3.40.50.300. 2 hits.
InterProIPR011545. DNA/RNA_helicase_DEAD/DEAH_N.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR002540. Pept_S30_P1_potyvir.
IPR001456. Peptidase_C6.
IPR001592. Poty_coat.
IPR001730. Potyv_NIa-pro_dom.
IPR013648. PP_Potyviridae.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR014014. RNA_helicase_DEAD_Q_motif.
IPR009003. Trypsin-like_Pept_dom.
[Graphical view]
PfamPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
PF00863. Peptidase_C4. 1 hit.
PF00851. Peptidase_C6. 1 hit.
PF01577. Peptidase_S30. 1 hit.
PF00767. Poty_coat. 1 hit.
PF08440. Poty_PP. 1 hit.
PF00680. RdRP_1. 1 hit.
[Graphical view]
PRINTSPR00966. NIAPOTYPTASE.
SMARTSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 2 hits.
PROSITEPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51436. POTYVIRUS_NIA_PRO. 1 hit.
PS51195. Q_MOTIF. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

PMAP-CutDBP09814.

Entry information

Entry namePOLG_TVMV
AccessionPrimary (citable) accession number: P09814
Secondary accession number(s): Q84898 expand/collapse secondary AC list , Q84899, Q84900, Q84901, Q84902
Entry history
Integrated into UniProtKB/Swiss-Prot: July 1, 1989
Last sequence update: May 30, 2000
Last modified: April 16, 2014
This is version 127 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

Peptidase families

Classification of peptidase families and list of entries