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Q6XW15 (POLG_BTMV) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 80. 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·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

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
OrganismBeet mosaic virus (BtMV) [Complete proteome]
Taxonomic identifier114921 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stagePotyviridaePotyvirus
Virus hostAmaranthus retroflexus (Redroot amaranth) (Redroot pigweed) [TaxID: 124763]
Beta vulgaris subsp. maritima (Sea beet) (Beta maritima) [TaxID: 350892]
Beta vulgaris subsp. vulgaris (sugar beet) [TaxID: 3555]
Chenopodium album (Lamb's-quarters) [TaxID: 3559]
Melilotus indicus (Sourclover) (Yellow sweet clover) [TaxID: 200951]
Sonchus arvensis (Perennial sowthistle) [TaxID: 50192]
Spinacia oleracea (Spinach) [TaxID: 3562]
Trifolium incarnatum (Crimson clover) [TaxID: 60916]

Protein attributes

Sequence length3085 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceInferred from homology

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 By similarity.

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 By similarity.

Genome polyprotein of potyviruses undergoes post-translational proteolytic processing by the main proteinase NIa-pro resulting in the production of at least ten 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: Q6XW15-1)

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: P0CJ96-1)

The sequence of this isoform can be found in the external entry P0CJ96.
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 – 30853085Genome polyprotein
PRO_0000419994
Chain1 – 313313P1 proteinase Potential
PRO_0000040246
Chain314 – 770457Helper component proteinase Potential
PRO_0000040247
Chain771 – 1117347Protein P3 Potential
PRO_0000040248
Chain1118 – 1169526 kDa protein 1 By similarity
PRO_0000040249
Chain1170 – 1803634Cytoplasmic inclusion protein By similarity
PRO_0000040250
Chain1804 – 1855526 kDa protein 2 By similarity
PRO_0000040251
Chain1856 – 2046191Viral genome-linked protein By similarity
PRO_0000040252
Chain2047 – 2293247Nuclear inclusion protein A By similarity
PRO_0000040253
Chain2294 – 2809516Nuclear inclusion protein B By similarity
PRO_0000040254
Chain2810 – 3085276Capsid protein
PRO_0000040255

Regions

Domain1241 – 1393153Helicase ATP-binding
Domain1412 – 1571160Helicase C-terminal
Domain2047 – 2266220Peptidase C4
Domain2535 – 2659125RdRp catalytic
Nucleotide binding1254 – 12618ATP Potential
Motif365 – 3684Involved in interaction with stylet and aphid transmission By similarity
Motif622 – 6243Involved in virions binding and aphid transmission By similarity
Motif1343 – 13464DESH box
Motif1895 – 190410Nuclear localization signal Potential

Sites

Active site6561For helper component proteinase activity By similarity
Active site7291For helper component proteinase activity By similarity
Active site20921For nuclear inclusion protein A activity By similarity
Active site21271For nuclear inclusion protein A activity By similarity
Active site21981For nuclear inclusion protein A activity By similarity
Site313 – 3142Cleavage; by P1 proteinase Potential
Site770 – 7712Cleavage; by HC-pro Potential
Site1117 – 11182Cleavage; by NIa-pro By similarity
Site1169 – 11702Cleavage; by NIa-pro By similarity
Site1803 – 18042Cleavage; by NIa-pro By similarity
Site1855 – 18562Cleavage; by NIa-pro By similarity
Site2046 – 20472Cleavage; by NIa-pro By similarity
Site2293 – 22942Cleavage; by NIa-pro By similarity
Site2809 – 28102Cleavage; by NIa-pro By similarity

Amino acid modifications

Modified residue19191O-(5'-phospho-RNA)-tyrosine By similarity

Sequences

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

Last modified July 5, 2004. Version 1.
Checksum: 918576B242794C0D

FASTA3,085349,731
        10         20         30         40         50         60 
MATMMHFGQF PSNIPLRAAT CCTKVHSTLV TKEMMASSVK PAESSSVARP IIYSSAATDG 

        70         80         90        100        110        120 
YEKAQRAFEA SFREKYSGKL EAMKYGKMVK KGGLTYVKRA GPQAIAKGIE MDAAIEKFNT 

       130        140        150        160        170        180 
AFNAGELENV TLEGDITAGI SVARGESVWL RSVFWSRSLK KQARKKTPKL VAKSDFDDLF 

       190        200        210        220        230        240 
NKVLKVASLG NIPVEIVGKK ANKILRCGYR RVNTSTIPYF HLPHHNSNYI CRELHPQRVR 

       250        260        270        280        290        300 
WLVPLLVRHR KIRDQFSDSM IARGWSGLIL PKYIASTCGR RYDEVIVRGR LYGRVEDART 

       310        320        330        340        350        360 
KLPAGDVGRT MHYSSGEERF FAGWKEGFEK LVPAQKEHIC KIVQDNKFCG KLAASIVQIA 

       370        380        390        400        410        420 
FPCHKMACDV CRNKFNEMTP EAYSELIDKH IDQRMNEINE AIVRFPGLKQ VVSNFRSKHI 

       430        440        450        460        470        480 
ASTNIKDNLE VAKLTQGHKA NQMMQLARIN SILIKGNTAT PSEISDASGL LLEITRWFNN 

       490        500        510        520        530        540 
HLSVIDKGSL RAFRNKRSSK ALVNPSLLCD NQRDKNGNFI WGERGYHSKR FFASHFDEVT 

       550        560        570        580        590        600 
PGDGYKEYII RKGPQGQRKL AIGNLIVSFD LEKTRQALKG EEVEKLPLSN SCVSKRNGNY 

       610        620        630        640        650        660 
VYTSCCVTLD DGTPLYSNIK NPTKRHLVVG TTGDPKIVDL PATDTDKMYI AKEGYCYLNI 

       670        680        690        700        710        720 
FLAMLINVNE NEAKAFTKMV RDIIIPMLGT WPTMQDLATA CFMMTAFFPE TSSAELPRIL 

       730        740        750        760        770        780 
VDHTNQTMHV IDSFGSLTTG YHVLKAGTAA QLIDFASTEL EGEMKWYRVG GHGLPVKEKM 

       790        800        810        820        830        840 
ISALITSIFR PKKLVYLIEE DPYVLIMAMC SPRLIISLFN NGALELAAKH WISRDKNVSA 

       850        860        870        880        890        900 
IFAMLMDLST EMSKAELLIE QHRMINECAK RVHDTQNYLD EVGPHQQEVR TFLALISDEL 

       910        920        930        940        950        960 
EADKELHKTG FANFSERFHS LTEKMYVDAL EEEWRGLSLL DRFSYATFVY KHKPRSTSVL 

       970        980        990       1000       1010       1020 
PPKKSEDIDA KFVISPSWFV GKTKEHLSGG RKYVTSQITQ FTSYIKRATL DRAMRIMCSC 

      1030       1040       1050       1060       1070       1080 
LKDLAYFMNV ALVTHLLISM IAAVYNMLND HRIAKRRLYI LEMQETNTAI WHLYDTWKTV 

      1090       1100       1110       1120       1130       1140 
NQRDPTHEEF RKYVAKVNKN LLRHLPEEED KAEVEYQANK VYEKKLEKAV ALMALFTMIF 

      1150       1160       1170       1180       1190       1200 
DTEKSGAVFS ILRNIKSVFS TLGEEVKYQS LDEIQSIEDE KKLTIDFDLD TEITAEHTTM 

      1210       1220       1230       1240       1250       1260 
DVQFEKWWDK QLSQNRVVPH YRVGGTFIEF TRHTAASVCN TICASSEQEF VVRGAVGSGK 

      1270       1280       1290       1300       1310       1320 
STGLPSHLSR KGRVLLLEPT RPLAENVCKQ LRKEPFHLSP TLRMRGLTTF GSSNISVMTS 

      1330       1340       1350       1360       1370       1380 
GYALHFHANN PQRLEEFDFI MIDESHTMDS STMAFYCLLR EYEFKGKILK VSATPPGREC 

      1390       1400       1410       1420       1430       1440 
EFKTQHDVLI KIEESLSYNS FVTAQGTGSN ADVVQNGDNI LVYVPSYNDV DQLSKGLMEK 

      1450       1460       1470       1480       1490       1500 
GHLVTKVDGR TMKMGNVEIP TKGTSSKKHF IVATNIIENG VTLDIDVVVD FGLKVVAELD 

      1510       1520       1530       1540       1550       1560 
SDSRCMRYKK VSISYGERLQ RLGRVGRVKQ GTALRIGHTE TGMTEIPVAI ATEAAFICFA 

      1570       1580       1590       1600       1610       1620 
YNLPVMTHNV TSSLLSRCTN RQARTMMQYE LSPFFMVELV HFNGCVHPQI ESKLKAYKLR 

      1630       1640       1650       1660       1670       1680 
DSETQLSTLA IPNSGTSRWK TVGEYKKLGV RIEADDNVRV PFAANGVPDR LYADLWETIQ 

      1690       1700       1710       1720       1730       1740 
QHKSDAGFGR LTSACASKIS YTLTTQPNAI PRTLAIIEHL LREEQQKKAY FESLNDTLCA 

      1750       1760       1770       1780       1790       1800 
TSFSLAGMVN NIRRRYLKDH SAHNINVLQN AKSQLNEFNS KAIDPERVGD IMGYGVLDTV 

      1810       1820       1830       1840       1850       1860 
QYQSATDVQK RLKLKGRWNG SLAATDLLIA GAVFAGGCWM LWEYTKSGNE IVQYQGKRRQ 

      1870       1880       1890       1900       1910       1920 
MQKLKFRNAR DNKVGREVYG DDGTIEHFFG AAYTERGKRK GNNSTKGMGT KTRRFVHMYG 

      1930       1940       1950       1960       1970       1980 
FDPTEYSFVR FVDPLTGYSK DESVQTDISL VQSEIGEYRQ KCMEDDDELI DFIKQKPGIQ 

      1990       2000       2010       2020       2030       2040 
AYFMKNGSDK ALQVDLTPHI PLLSCAKTAT IAGFPERESE LRQTGTPIVV NKNVVPGEHK 

      2050       2060       2070       2080       2090       2100 
EVVREEGKSI VKGLRNYNPI SSVVCRLTND SNGNAQTLYG VGFGPLIITN SHLFKMNNGT 

      2110       2120       2130       2140       2150       2160 
LFVRSHQGEF TVQNTTQLQI YHVKDKDMIL IRMPKDFPPF PMKLKFRAPH SEERACLVGS 

      2170       2180       2190       2200       2210       2220 
RFQQKSLSSE VSDSTLIRPT DSGSGYWKHW VSTKEGDCGL PMVALKDGSL IGIHGLTSVR 

      2230       2240       2250       2260       2270       2280 
SELNYFVPFT DDFQSKYLSN IESLEWVKHW RHTPDKVAWN GMTLRENGPA SEFSVSKLIA 

      2290       2300       2310       2320       2330       2340 
DLTHGYVDEV VEQGYSSKWV ANRLDGNLKA VASSSSQLVT KHVVKGPCVL FQEFLATHEE 

      2350       2360       2370       2380       2390       2400 
AARYFVPRMG EYGPSRLNKE AFLKDFLKYA GPITVGVVNT NSFEDAVASV INMLEDLDYG 

      2410       2420       2430       2440       2450       2460 
ECAYVTDPDS IFDSLNMKAA VGALYKGKKK EYFEQLNTTE REDLLRLSCE RLYEGKMGVW 

      2470       2480       2490       2500       2510       2520 
NGSLKAELRP KEKLEQNKTR TFTAAPIDTL LGGKVCVDDF NNRFYSLNLK GPWSVGMTKF 

      2530       2540       2550       2560       2570       2580 
YGGWNELLQK LPDGWIYCDA DGSQFDSSLT PYLINAVVQI REHFMEDWEI GRTMLRNFYT 

      2590       2600       2610       2620       2630       2640 
EIVYTPILTP DGTIVKKFKG NNSGQPSTVV DNTLMVILAM HYAMHQQCWK EEEMKEKIRF 

      2650       2660       2670       2680       2690       2700 
FANGDDLLIA IYPSKEKFLN VLSEYFHELG LKYDFSSRST VRETLWFMSH RGLYLDDMYI 

      2710       2720       2730       2740       2750       2760 
PKLEEERIVS ILEWDRSNEA THRAEAICAA MIEAWGYPEL LKYIREFYLW MMQHECYRDL 

      2770       2780       2790       2800       2810       2820 
VRDGKLPYIA ETALRKLYTD KSVDENELVK YWKALAPEED DGPDIVTYQG DEKPSKSSQP 

      2830       2840       2850       2860       2870       2880 
QSSSPQVPQQ VDAGASSQGR DKQSVIKHDS TKSKDVGQSS TAVPRLKQIS KMRMPVSKGR 

      2890       2900       2910       2920       2930       2940 
QVLALDHLLD YKPEQVDLSN TRATKEQFDN WYEAVMREYD VSDSQMGVIM NGLMVWCIEN 

      2950       2960       2970       2980       2990       3000 
GTSPNLSGDW VMMDGEEQVS FPLKPIVENA KPSFRQIMHH FSDAAEAYIE MRNRERPYMP 

      3010       3020       3030       3040       3050       3060 
RYGAQRNLRD KTLARYAFDF YEVTSRTTDR AREAHFQMKA AALASVSNKL FGLDGSVATT 

      3070       3080 
SEDTERHTAT DVNAHMHHMM GVRQG 

« Hide

Isoform P3N-PIPO polyprotein [UniParc].

See P0CJ96.

References

[1]"The complete nucleotide sequence, genome organization, and specific detection of beet mosaic virus."
Nemchinov L.G., Hammond J., Jordan R., Hammond R.W.
Arch. Virol. 149:1201-1214(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]"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
AY206394 Genomic RNA. Translation: AAP41071.1.
RefSeqNP_954611.1. NC_005304.1. [Q6XW15-1]

3D structure databases

ProteinModelPortalQ6XW15.
SMRQ6XW15. Positions 2055-2269.
ModBaseSearch...
MobiDBSearch...

Protein family/group databases

MEROPSS30.001.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID2943205.

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.
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.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry namePOLG_BTMV
AccessionPrimary (citable) accession number: Q6XW15
Entry history
Integrated into UniProtKB/Swiss-Prot: April 26, 2005
Last sequence update: July 5, 2004
Last modified: May 14, 2014
This is version 80 of the entry and version 1 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