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A4KZ49

- POLG_TRMVU

UniProt

A4KZ49 - POLG_TRMVU

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Protein

Genome polyprotein

Gene
N/A
Organism
Triticum mosaic virus (isolate Triticum aestivum/United States/U06-123/2006) (TriMV)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

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).By similarity
Cytoplasmic inclusion protein: has helicase activity. It may be involved in replication (By similarity).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 activityi

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).PROSITE-ProRule annotation
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.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei383 – 3842Cleavage; by P1 proteinaseSequence Analysis
Active sitei737 – 7371For helper component proteinase activityBy similarity
Active sitei809 – 8091For helper component proteinase activityBy similarity
Sitei850 – 8512Cleavage; by HC-proSequence Analysis
Sitei1148 – 11492Cleavage; by NIa-proBy similarity
Sitei1204 – 12052Cleavage; by NIa-proBy similarity
Sitei1852 – 18532Cleavage; by NIa-proBy similarity
Sitei1902 – 19032Cleavage; by NIa-proBy similarity
Sitei2095 – 20962Cleavage; by NIa-proBy similarity
Active sitei2140 – 21401For nuclear inclusion protein A activityPROSITE-ProRule annotation
Active sitei2174 – 21741For nuclear inclusion protein A activityPROSITE-ProRule annotation
Active sitei2243 – 22431For nuclear inclusion protein A activityPROSITE-ProRule annotation
Sitei2328 – 23292Cleavage; by NIa-proBy similarity
Sitei2818 – 28192Cleavage; by NIa-proBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi1291 – 12988ATPPROSITE-ProRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. cysteine-type endopeptidase activity Source: InterPro
  3. helicase activity Source: UniProtKB-KW
  4. RNA binding Source: InterPro
  5. RNA-directed RNA polymerase activity Source: UniProtKB-KW
  6. structural molecule activity Source: InterPro

GO - Biological processi

  1. RNA-protein covalent cross-linking Source: UniProtKB-KW
  2. transcription, DNA-templated Source: InterPro
  3. viral RNA genome replication Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Suppressor of RNA silencing, Thiol protease, Transferase

Keywords - Biological processi

Viral RNA replication

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Genome polyprotein
Cleaved into the following 10 chains:
Alternative name(s):
N-terminal protein (EC:3.4.-.-)
Helper component proteinase (EC:3.4.22.45)
Short name:
HC-pro
6 kDa protein 1
Short name:
6K1
6 kDa protein 2
Short name:
6K2
Alternative name(s):
VPg
Nuclear inclusion protein A (EC:3.4.22.44)
Short name:
NI-a
Short name:
NIa
Alternative name(s):
49 kDa proteinase
Short name:
49 kDa-Pro
NIa-pro
Nuclear inclusion protein B (EC:2.7.7.48)
Short name:
NI-b
Short name:
NIb
Alternative name(s):
RNA-directed RNA polymerase
Capsid protein
Short name:
CP
Alternative name(s):
Coat protein
OrganismiTriticum mosaic virus (isolate Triticum aestivum/United States/U06-123/2006) (TriMV)
Taxonomic identifieri1289472 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stagePotyviridaePoacevirus
Virus hostiAvena sativa (Oat) [TaxID: 4498]
Hordeum vulgare (Barley) [TaxID: 4513]
Secale cereale (Rye) [TaxID: 4550]
Triticum aestivum (Wheat) [TaxID: 4565]
x Triticosecale [TaxID: 49317]
ProteomesiUP000008255: Genome

Subcellular locationi

GO - Cellular componenti

  1. helical viral capsid Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, Helical capsid protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 31123112Genome polyproteinPRO_0000420027Add
BLAST
Chaini1 – 383383P1 proteinaseSequence AnalysisPRO_0000395486Add
BLAST
Chaini384 – 850467Helper component proteinaseSequence AnalysisPRO_0000395487Add
BLAST
Chaini851 – 1148298Protein P3By similarityPRO_0000395488Add
BLAST
Chaini1149 – 1204566 kDa protein 1By similarityPRO_0000395489Add
BLAST
Chaini1205 – 1852648Cytoplasmic inclusion proteinBy similarityPRO_0000395490Add
BLAST
Chaini1853 – 1902506 kDa protein 2By similarityPRO_0000395491Add
BLAST
Chaini1903 – 2095193Viral genome-linked proteinBy similarityPRO_0000395492Add
BLAST
Chaini2096 – 2328233Nuclear inclusion protein ABy similarityPRO_0000395493Add
BLAST
Chaini2329 – 2818490Nuclear inclusion protein BBy similarityPRO_0000395494Add
BLAST
Chaini2819 – 3112294Capsid proteinBy similarityPRO_0000288836Add
BLAST

Post-translational modificationi

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).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).By similarity

Keywords - PTMi

Covalent protein-RNA linkage, Phosphoprotein

Structurei

3D structure databases

ProteinModelPortaliA4KZ49.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1278 – 1429152Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini1444 – 1627184Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST
Domaini2096 – 2311216Peptidase C4PROSITE-ProRule annotationAdd
BLAST
Domaini2569 – 2687119RdRp catalyticPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi1379 – 13824DECH box

Domaini

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).By similarity

Sequence similaritiesi

Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation
Contains 1 peptidase C4 domain.PROSITE-ProRule annotation
Contains 1 peptidase C6 domain.Curated
Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
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]
PfamiPF00270. 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]
PRINTSiPR00966. NIAPOTYPTASE.
SMARTiSM00487. DEXDc. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEiPS51192. 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]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

A4KZ49-1 [UniParc]FASTAAdd to Basket

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        10         20         30         40         50
MSSKKMMWVP KSAHKAPVVS REPVIRKKEW VARQIPKYIP VSNPSDCRDE
60 70 80 90 100
ISQTLLHFDS EEAVYDFVWR FPMGSIFWDT NGRIKPVVNC LLRATRMNLD
110 120 130 140 150
YDVAADVYVC RDCLSCASSY MYFSNYHYDC RELRENHEAV VSCKYEQHIV
160 170 180 190 200
STFDVFPRYC TQEIEQNVVN WMTETLERYD NEPLRIEKQL QFYNHKTEQM
210 220 230 240 250
ESRVQEVQVT TAEYAVSDTY VPQQLSRKGS VSAKLTQRRA NKIIMRTHEV
260 270 280 290 300
ENLIRETIDL CDERQIPITF VDVKHKRCLP RIPLRHMQAK PDISEIVEQG
310 320 330 340 350
DMYNEVGQFI EQYQNLAEPF RVIRDYEVTR GWSGVILHRD DLALDPQTQA
360 370 380 390 400
RCLNNLFVVM GRCEHGHLQN ALRPDCLEGL TYYSDTFGKV FNESLVKHHP
410 420 430 440 450
GKHQFRIGSR TDYEWEELAM WVNAVCPVSF RCADCRPPQS LNEYIENIRM
460 470 480 490 500
SKAMAELAGR QDALSKTLHK WTTMLISSVL TTEIRARDNL EPIQERIFTR
510 520 530 540 550
NMPLGPLYDV AGAMNRAVID IQTAVQNMQL SIGNSNMNEQ QRNQTLLNEI
560 570 580 590 600
NKIKQHSFMQ TKEMLSRFEN IAQTYQNIIS SASQPLSIHS MRQLMMDSRM
610 620 630 640 650
DESFEFDIMR KKGSIASIAP MAFRTFEDIY SQPGVYNQKW LNLTPSGRFQ
660 670 680 690 700
TDIDYLRLDL PIDVIQKKKH VVNRNEIKEE TCYVIVGQVN VSFCEVVARC
710 720 730 740 750
FVPIPHVLRV GSPQNPTMIK IQDQEGGKTL VPKSGFCYVL QLVLMLGYVP
760 770 780 790 800
DQLTAAFVKD VGIVVESLGP WPLFVDYLGA IKNLIIRYPT TIKAPTALHI
810 820 830 840 850
VDHVDTVIHV MTTLGCVNKG EHYLTLQSVA QLHDAAMTVN IETFKDYRIG
860 870 880 890 900
GVVPQLKHML QSEEHMLEVL EAKPQWLVHL LLSPTQIWAL SQSVVKYQVI
910 920 930 940 950
HKVMTSNPDL AVALAQLVAI SSNFSIFKNT EHVIQKYFEV SKQLQNVSGV
960 970 980 990 1000
ILGEHNEYFE TAFAQYSALR FSTDVVLLMD QFSTRKKTLD DLEDYYRKTI
1010 1020 1030 1040 1050
PSILIECGLL GPSDFGWRKR LVRGVVDRGS GLKSTVKSLG SFSTKEKWIS
1060 1070 1080 1090 1100
WSGLGSGTIT CVKFPFVCLQ RSGSWLYSST KTTAFNAVWM AGIKCVKSNV
1110 1120 1130 1140 1150
RSILLDSALY GAITLALLCA IKLIRKAFRF VEGLIKEDTS DDEDYVLHAK
1160 1170 1180 1190 1200
AASDSLYIQC LAWLALVVGC FNSGLANDIY FSTTKYRTLL DMVKTAHSDS
1210 1220 1230 1240 1250
FVFHAGDEEE GEIVELITRD NFVDYVYNHS DPLMEFDSET LLGWYTRISY
1260 1270 1280 1290 1300
QGRVLEHPLR VGTNCHLTRE NVDEIAKNIA TGAGNEFIVV GDVGSGKSTK
1310 1320 1330 1340 1350
LPIAVSTYGP VLILVPSREL VNNLCSSIWH VGKKQASTYM MNCITRGTSN
1360 1370 1380 1390 1400
ISIMTYGYAL ALFSHCPIEL QKYRFIQMDE CHEFSSHMIT FYSWWRESGK
1410 1420 1430 1440 1450
FTKLFKTTAT PPGTVIKGGC VPTNHKVDVI EIRDVSVEEF CRRSIDSHAE
1460 1470 1480 1490 1500
GLRSLMPNGG RVIMFVPSRR ECELARSSLI SIPGARTWVV YRAAATQATK
1510 1520 1530 1540 1550
LVAELADDKH YFQIIITTTV LQNGVNLDPD CVVDFGQTFE AAYDRDSRQL
1560 1570 1580 1590 1600
GVRRRNINPG ELIQRVGRVG RNKPGKFIQV GKRLEHEVVP NSCCVTDAIL
1610 1620 1630 1640 1650
MSFTLELAPF ISSHLIDEVN FVTREQVRTA MKFSAPLLFM IHYVRRDGRM
1660 1670 1680 1690 1700
LNGYYQQLKG LLLQTSDVAL CDTLVGDAET NSFLTLRQYQ LRGIIEAQEV
1710 1720 1730 1740 1750
LPDLPIPFYS SEFALPFYLE IGQITKEAIR ARSFTLRIKT PDVKKAVMRL
1760 1770 1780 1790 1800
STSATQIDQT IGILRTRLQL TRERLSKFSE LKATAHNLRL TPIFNTCFDM
1810 1820 1830 1840 1850
GAAKSESTLR ASLTAGEELL SALELARTEK SDKALEKLIL DNPVLGDCLV
1860 1870 1880 1890 1900
FHGGPEEYFD QTLFQTSTGL INKYTVGIAC LTVGLGCTIW YYLKKREKYV
1910 1920 1930 1940 1950
MHGKVHTRET GLTTNHLFVP GMKEHIQEWT GGDHEIGNRF GEAYKRRFIG
1960 1970 1980 1990 2000
RQPTEEQKLS KEKWDKREGQ QTSVYKTLYD LDPTKFKYVV VECPDFDLKK
2010 2020 2030 2040 2050
KLNRQEKKQL DTTIVEACRT RMLDKGQHDF KDVERATVYL FNDNGVGHKV
2060 2070 2080 2090 2100
QLTPHNPLAV SRTTTHPVGF PAEAGRLRQT GQAMEMTPEE LEKALDDNYV
2110 2120 2130 2140 2150
PHSRCQIDIS HLHRHLAIVN TGGMSTQCFI TQTMCVAPYH LAMGFKDNTK
2160 2170 2180 2190 2200
LTIYCSNGVY VMPVPKVEKM ENMDLVVFRM PQDFPPLKRC ATIREPKSSD
2210 2220 2230 2240 2250
EVTLITGKRT THGIQLQFSK VVSIDRKSDT VWKYMIDSVP GVCGGMVMCV
2260 2270 2280 2290 2300
EDGCVVGFHS AAAIRNKVSN GSIFTPVTPQ LLDSLQSSEG HLFDWYFNDD
2310 2320 2330 2340 2350
LISWKGVPTN MDPRNFPVSE TISEFIFHND SKGHGTDKYY GENLTIEGRV
2360 2370 2380 2390 2400
LQSFNTRHVV KGLDDAFAEY VNKFGEPPAD TFTHLPSDLS SDAFYKDFMK
2410 2420 2430 2440 2450
YSTPVEVGTV NIENFEKAVQ AVVELLEQQG FEQGEFSPEM DFYKILNSFN
2460 2470 2480 2490 2500
LDTAMGALYQ CKKKDVLPMA SHEQLATWFW NSLENLATGK LGLWKASLKA
2510 2520 2530 2540 2550
ELRPKEKVLE KKTRVFTAAP FDVSFGAKAF VDDFNNKFYA TQAGSNWTVG
2560 2570 2580 2590 2600
INKFNCGWDE LARRFNPDWK FIDADGSRYD SSLTPLLFNA VLRIRQHFLR
2610 2620 2630 2640 2650
ANGFERRMLS NFYTQLVWTP ISTITGQIVK KNKGGPSGQP STVVDNTMML
2660 2670 2680 2690 2700
MIAVEYAKLQ YGVTDLKYVC NGDDLILNAP QGVCETIRAN FSHSFKELGL
2710 2720 2730 2740 2750
TYEFEQEVDS IDQVEYMSHK WIDCGGVLIP KLKPERIVSV LQWNKSLDLA
2760 2770 2780 2790 2800
SQANKINAAW IESFGYGDLS KFIREYANWW GERNGQVGFL CSEEKVASLY
2810 2820 2830 2840 2850
LTNDVTIHTE EHDEFVFHSG ADQSGVVKDQ TGDKAEGSGT KTEDPPNQTT
2860 2870 2880 2890 2900
DPVNNPSNGG NKDAPQNLNA TVVTKSYTYI PPIMKSLVTI DTAKKMADYT
2910 2920 2930 2940 2950
PPDALISTQA CTLEQFGRWA NAAANGLGLS MQAFQTDVVP YWIYWCIVNS
2960 2970 2980 2990 3000
ASDEHKKLSS WTKVNMTIDD ATGQINLNEG EAQTIYEMSP MFDEAKPTLR
3010 3020 3030 3040 3050
AVMRHFGALA YRWVKFSIAK RKPIIPHNAI KAGLMDVTYF PCCIDFVTVD
3060 3070 3080 3090 3100
QLSPQEQNVR NQVINARVSD TPRALFKHAQ RAGAGEEDTN LRRDDDANYG
3110
RTRVGGAMFG TR
Length:3,112
Mass (Da):352,841
Last modified:July 13, 2010 - v3
Checksum:i5B066BBD6C5D5151
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti2819 – 28191S → E AA sequence 1 PublicationCurated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FJ263671 Genomic RNA. Translation: ABO41208.2.
RefSeqiYP_002956073.1. NC_012799.1.

Genome annotation databases

GeneIDi7984336.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FJ263671 Genomic RNA. Translation: ABO41208.2 .
RefSeqi YP_002956073.1. NC_012799.1.

3D structure databases

ProteinModelPortali A4KZ49.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 7984336.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR011545. DEAD/DEAH_box_helicase_dom.
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 ]
Pfami PF00270. 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 ]
PRINTSi PR00966. NIAPOTYPTASE.
SMARTi SM00487. DEXDc. 1 hit.
[Graphical view ]
SUPFAMi SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEi PS51192. 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 ]
ProtoNeti Search...

Publicationsi

  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.

Entry informationi

Entry nameiPOLG_TRMVU
AccessioniPrimary (citable) accession number: A4KZ49
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 29, 2007
Last sequence update: July 13, 2010
Last modified: October 29, 2014
This is version 46 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3