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A4KZ49 (POLG_TRMVU) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 42. 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:
Genome polyprotein

Cleaved into the following 10 chains:

  1. P1 proteinase
    Alternative name(s):
    N-terminal protein
    EC=3.4.-.-
  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
OrganismTriticum mosaic virus (isolate Triticum aestivum/United States/U06-123/2006) (TriMV) [Complete proteome]
Taxonomic identifier1289472 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stagePotyviridaePoacevirus
Virus hostAvena sativa (Oat) [TaxID: 4498]
Hordeum vulgare (Barley) [TaxID: 4513]
Secale cereale (Rye) [TaxID: 4550]
Triticum aestivum (Wheat) [TaxID: 4565]
x Triticosecale [TaxID: 49317]

Protein attributes

Sequence length3112 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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 By similarity.

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

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 By similarity.

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 By similarity.

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 RdRp catalytic domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 31123112Genome polyprotein
PRO_0000420027
Chain1 – 383383P1 proteinase Potential
PRO_0000395486
Chain384 – 850467Helper component proteinase Potential
PRO_0000395487
Chain851 – 1148298Protein P3 By similarity
PRO_0000395488
Chain1149 – 1204566 kDa protein 1 By similarity
PRO_0000395489
Chain1205 – 1852648Cytoplasmic inclusion protein By similarity
PRO_0000395490
Chain1853 – 1902506 kDa protein 2 By similarity
PRO_0000395491
Chain1903 – 2095193Viral genome-linked protein By similarity
PRO_0000395492
Chain2096 – 2328233Nuclear inclusion protein A By similarity
PRO_0000395493
Chain2329 – 2818490Nuclear inclusion protein B By similarity
PRO_0000395494
Chain2819 – 3112294Capsid protein By similarity
PRO_0000288836

Regions

Domain1278 – 1429152Helicase ATP-binding
Domain1444 – 1627184Helicase C-terminal
Domain2096 – 2311216Peptidase C4
Domain2569 – 2687119RdRp catalytic
Nucleotide binding1291 – 12988ATP By similarity
Motif1379 – 13824DECH box

Sites

Active site7371For helper component proteinase activity By similarity
Active site8091For helper component proteinase activity By similarity
Active site21401For nuclear inclusion protein A activity By similarity
Active site21741For nuclear inclusion protein A activity By similarity
Active site22431For nuclear inclusion protein A activity By similarity
Site383 – 3842Cleavage; by P1 proteinase Potential
Site850 – 8512Cleavage; by HC-pro Potential
Site1148 – 11492Cleavage; by NIa-pro By similarity
Site1204 – 12052Cleavage; by NIa-pro By similarity
Site1852 – 18532Cleavage; by NIa-pro By similarity
Site1902 – 19032Cleavage; by NIa-pro By similarity
Site2095 – 20962Cleavage; by NIa-pro By similarity
Site2328 – 23292Cleavage; by NIa-pro By similarity
Site2818 – 28192Cleavage; by NIa-pro By similarity

Experimental info

Sequence conflict28191S → E AA sequence Ref.2

Sequences

Sequence LengthMass (Da)Tools
A4KZ49 [UniParc].

Last modified July 13, 2010. Version 3.
Checksum: 5B066BBD6C5D5151

FASTA3,112352,841
        10         20         30         40         50         60 
MSSKKMMWVP KSAHKAPVVS REPVIRKKEW VARQIPKYIP VSNPSDCRDE ISQTLLHFDS 

        70         80         90        100        110        120 
EEAVYDFVWR FPMGSIFWDT NGRIKPVVNC LLRATRMNLD YDVAADVYVC RDCLSCASSY 

       130        140        150        160        170        180 
MYFSNYHYDC RELRENHEAV VSCKYEQHIV STFDVFPRYC TQEIEQNVVN WMTETLERYD 

       190        200        210        220        230        240 
NEPLRIEKQL QFYNHKTEQM ESRVQEVQVT TAEYAVSDTY VPQQLSRKGS VSAKLTQRRA 

       250        260        270        280        290        300 
NKIIMRTHEV ENLIRETIDL CDERQIPITF VDVKHKRCLP RIPLRHMQAK PDISEIVEQG 

       310        320        330        340        350        360 
DMYNEVGQFI EQYQNLAEPF RVIRDYEVTR GWSGVILHRD DLALDPQTQA RCLNNLFVVM 

       370        380        390        400        410        420 
GRCEHGHLQN ALRPDCLEGL TYYSDTFGKV FNESLVKHHP GKHQFRIGSR TDYEWEELAM 

       430        440        450        460        470        480 
WVNAVCPVSF RCADCRPPQS LNEYIENIRM SKAMAELAGR QDALSKTLHK WTTMLISSVL 

       490        500        510        520        530        540 
TTEIRARDNL EPIQERIFTR NMPLGPLYDV AGAMNRAVID IQTAVQNMQL SIGNSNMNEQ 

       550        560        570        580        590        600 
QRNQTLLNEI NKIKQHSFMQ TKEMLSRFEN IAQTYQNIIS SASQPLSIHS MRQLMMDSRM 

       610        620        630        640        650        660 
DESFEFDIMR KKGSIASIAP MAFRTFEDIY SQPGVYNQKW LNLTPSGRFQ TDIDYLRLDL 

       670        680        690        700        710        720 
PIDVIQKKKH VVNRNEIKEE TCYVIVGQVN VSFCEVVARC FVPIPHVLRV GSPQNPTMIK 

       730        740        750        760        770        780 
IQDQEGGKTL VPKSGFCYVL QLVLMLGYVP DQLTAAFVKD VGIVVESLGP WPLFVDYLGA 

       790        800        810        820        830        840 
IKNLIIRYPT TIKAPTALHI VDHVDTVIHV MTTLGCVNKG EHYLTLQSVA QLHDAAMTVN 

       850        860        870        880        890        900 
IETFKDYRIG GVVPQLKHML QSEEHMLEVL EAKPQWLVHL LLSPTQIWAL SQSVVKYQVI 

       910        920        930        940        950        960 
HKVMTSNPDL AVALAQLVAI SSNFSIFKNT EHVIQKYFEV SKQLQNVSGV ILGEHNEYFE 

       970        980        990       1000       1010       1020 
TAFAQYSALR FSTDVVLLMD QFSTRKKTLD DLEDYYRKTI PSILIECGLL GPSDFGWRKR 

      1030       1040       1050       1060       1070       1080 
LVRGVVDRGS GLKSTVKSLG SFSTKEKWIS WSGLGSGTIT CVKFPFVCLQ RSGSWLYSST 

      1090       1100       1110       1120       1130       1140 
KTTAFNAVWM AGIKCVKSNV RSILLDSALY GAITLALLCA IKLIRKAFRF VEGLIKEDTS 

      1150       1160       1170       1180       1190       1200 
DDEDYVLHAK AASDSLYIQC LAWLALVVGC FNSGLANDIY FSTTKYRTLL DMVKTAHSDS 

      1210       1220       1230       1240       1250       1260 
FVFHAGDEEE GEIVELITRD NFVDYVYNHS DPLMEFDSET LLGWYTRISY QGRVLEHPLR 

      1270       1280       1290       1300       1310       1320 
VGTNCHLTRE NVDEIAKNIA TGAGNEFIVV GDVGSGKSTK LPIAVSTYGP VLILVPSREL 

      1330       1340       1350       1360       1370       1380 
VNNLCSSIWH VGKKQASTYM MNCITRGTSN ISIMTYGYAL ALFSHCPIEL QKYRFIQMDE 

      1390       1400       1410       1420       1430       1440 
CHEFSSHMIT FYSWWRESGK FTKLFKTTAT PPGTVIKGGC VPTNHKVDVI EIRDVSVEEF 

      1450       1460       1470       1480       1490       1500 
CRRSIDSHAE GLRSLMPNGG RVIMFVPSRR ECELARSSLI SIPGARTWVV YRAAATQATK 

      1510       1520       1530       1540       1550       1560 
LVAELADDKH YFQIIITTTV LQNGVNLDPD CVVDFGQTFE AAYDRDSRQL GVRRRNINPG 

      1570       1580       1590       1600       1610       1620 
ELIQRVGRVG RNKPGKFIQV GKRLEHEVVP NSCCVTDAIL MSFTLELAPF ISSHLIDEVN 

      1630       1640       1650       1660       1670       1680 
FVTREQVRTA MKFSAPLLFM IHYVRRDGRM LNGYYQQLKG LLLQTSDVAL CDTLVGDAET 

      1690       1700       1710       1720       1730       1740 
NSFLTLRQYQ LRGIIEAQEV LPDLPIPFYS SEFALPFYLE IGQITKEAIR ARSFTLRIKT 

      1750       1760       1770       1780       1790       1800 
PDVKKAVMRL STSATQIDQT IGILRTRLQL TRERLSKFSE LKATAHNLRL TPIFNTCFDM 

      1810       1820       1830       1840       1850       1860 
GAAKSESTLR ASLTAGEELL SALELARTEK SDKALEKLIL DNPVLGDCLV FHGGPEEYFD 

      1870       1880       1890       1900       1910       1920 
QTLFQTSTGL INKYTVGIAC LTVGLGCTIW YYLKKREKYV MHGKVHTRET GLTTNHLFVP 

      1930       1940       1950       1960       1970       1980 
GMKEHIQEWT GGDHEIGNRF GEAYKRRFIG RQPTEEQKLS KEKWDKREGQ QTSVYKTLYD 

      1990       2000       2010       2020       2030       2040 
LDPTKFKYVV VECPDFDLKK KLNRQEKKQL DTTIVEACRT RMLDKGQHDF KDVERATVYL 

      2050       2060       2070       2080       2090       2100 
FNDNGVGHKV QLTPHNPLAV SRTTTHPVGF PAEAGRLRQT GQAMEMTPEE LEKALDDNYV 

      2110       2120       2130       2140       2150       2160 
PHSRCQIDIS HLHRHLAIVN TGGMSTQCFI TQTMCVAPYH LAMGFKDNTK LTIYCSNGVY 

      2170       2180       2190       2200       2210       2220 
VMPVPKVEKM ENMDLVVFRM PQDFPPLKRC ATIREPKSSD EVTLITGKRT THGIQLQFSK 

      2230       2240       2250       2260       2270       2280 
VVSIDRKSDT VWKYMIDSVP GVCGGMVMCV EDGCVVGFHS AAAIRNKVSN GSIFTPVTPQ 

      2290       2300       2310       2320       2330       2340 
LLDSLQSSEG HLFDWYFNDD LISWKGVPTN MDPRNFPVSE TISEFIFHND SKGHGTDKYY 

      2350       2360       2370       2380       2390       2400 
GENLTIEGRV LQSFNTRHVV KGLDDAFAEY VNKFGEPPAD TFTHLPSDLS SDAFYKDFMK 

      2410       2420       2430       2440       2450       2460 
YSTPVEVGTV NIENFEKAVQ AVVELLEQQG FEQGEFSPEM DFYKILNSFN LDTAMGALYQ 

      2470       2480       2490       2500       2510       2520 
CKKKDVLPMA SHEQLATWFW NSLENLATGK LGLWKASLKA ELRPKEKVLE KKTRVFTAAP 

      2530       2540       2550       2560       2570       2580 
FDVSFGAKAF VDDFNNKFYA TQAGSNWTVG INKFNCGWDE LARRFNPDWK FIDADGSRYD 

      2590       2600       2610       2620       2630       2640 
SSLTPLLFNA VLRIRQHFLR ANGFERRMLS NFYTQLVWTP ISTITGQIVK KNKGGPSGQP 

      2650       2660       2670       2680       2690       2700 
STVVDNTMML MIAVEYAKLQ YGVTDLKYVC NGDDLILNAP QGVCETIRAN FSHSFKELGL 

      2710       2720       2730       2740       2750       2760 
TYEFEQEVDS IDQVEYMSHK WIDCGGVLIP KLKPERIVSV LQWNKSLDLA SQANKINAAW 

      2770       2780       2790       2800       2810       2820 
IESFGYGDLS KFIREYANWW GERNGQVGFL CSEEKVASLY LTNDVTIHTE EHDEFVFHSG 

      2830       2840       2850       2860       2870       2880 
ADQSGVVKDQ TGDKAEGSGT KTEDPPNQTT DPVNNPSNGG NKDAPQNLNA TVVTKSYTYI 

      2890       2900       2910       2920       2930       2940 
PPIMKSLVTI DTAKKMADYT PPDALISTQA CTLEQFGRWA NAAANGLGLS MQAFQTDVVP 

      2950       2960       2970       2980       2990       3000 
YWIYWCIVNS ASDEHKKLSS WTKVNMTIDD ATGQINLNEG EAQTIYEMSP MFDEAKPTLR 

      3010       3020       3030       3040       3050       3060 
AVMRHFGALA YRWVKFSIAK RKPIIPHNAI KAGLMDVTYF PCCIDFVTVD QLSPQEQNVR 

      3070       3080       3090       3100       3110 
NQVINARVSD TPRALFKHAQ RAGAGEEDTN LRRDDDANYG RTRVGGAMFG TR 

« Hide

References

[1]"The complete genome sequence of Triticum mosaic virus, a new wheat-infecting virus of the High Plains."
Fellers J.P., Seifers D., Ryba-White M., Martin T.J.
Arch. Virol. 154:1511-1515(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]"Triticum mosaic virus: A new virus isolated from wheat in Kansas."
Seifers D.L., Martin T.J., Harvey T.L., Fellers J.P., Stack J.P., Ryba-White M., Haber S., Krokhin O.V., Spicer V., Lovat N., Yamchuk A., Standing K.G.
Plant Dis. 92:808-817(2008)
Cited for: PROTEIN SEQUENCE OF 2819-2918; 2953-2968; 2988-3000; 3005-3012 AND 3016-3112.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
FJ263671 Genomic RNA. Translation: ABO41208.2.
RefSeqYP_002956073.1. NC_012799.1.

3D structure databases

ProteinModelPortalA4KZ49.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID7984336.

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.
IPR025910. P1_Ser_Pept_dom.
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.
PF13611. Peptidase_S76. 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.
[Graphical view]
SUPFAMSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
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_TRMVU
AccessionPrimary (citable) accession number: A4KZ49
Entry history
Integrated into UniProtKB/Swiss-Prot: May 29, 2007
Last sequence update: July 13, 2010
Last modified: April 16, 2014
This is version 42 of the entry and version 3 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