Q65730 (POLG_BSTV1) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names	Recommended name: Genome polyprotein Cleaved into the following 10 chains: P1 proteinase Alternative name(s): N-terminal protein Helper component proteinase Short name=HC-pro EC=3.4.22.45 Protein P3 6 kDa protein 1 Short name=6K1 Cytoplasmic inclusion protein Short name=CI EC=3.6.4.- 6 kDa protein 2 Short name=6K2 Viral genome-linked protein Alternative name(s): VPg 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 Nuclear inclusion protein B Short name=NI-b Short name=NIb EC=2.7.7.48 Alternative name(s): RNA-directed RNA polymerase Coat protein Short name=CP
Organism	Brome streak virus (strain 11-Cal) (BStV) (Brome streak mosaic rymovirus) [Reference proteome]
Taxonomic identifier	117138 [NCBI]
Taxonomic lineage	Viruses › ssRNA viruses › ssRNA positive-strand viruses, no DNA stage › Potyviridae › Tritimovirus › Brome streak mosaic virus
Virus host	Bromus [TaxID: 4501] Hordeum murinum (Mouse barley) (Critesion murinum) [TaxID: 97361]

Protein attributes

Sequence length	3093 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

General annotation (Comments)

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

Ontologies

Keywords
Biological process	Viral RNA replication
Cellular component	Virion
Ligand	ATP-binding Nucleotide-binding
Molecular function	Capsid protein Helicase Hydrolase Nucleotidyltransferase Protease RNA-directed RNA polymerase Suppressor of RNA silencing Thiol protease Transferase
PTM	Covalent protein-RNA linkage Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	RNA-protein covalent cross-linking Inferred from electronic annotation. Source: UniProtKB-KW proteolysis Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: InterPro viral genome replication Inferred from electronic annotation. Source: InterPro
Cellular_component	viral capsid Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW ATP-dependent helicase activity Inferred from electronic annotation. Source: InterPro RNA binding Inferred from electronic annotation. Source: InterPro RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW cysteine-type endopeptidase activity Inferred from electronic annotation. Source: InterPro structural molecule activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 3093	3093	Genome polyprotein		PRO_0000419992
	Chain	1 – 403	403	P1 proteinase		PRO_0000040233
	Chain	404 – 809	406	Helper component proteinase		PRO_0000040234
	Chain	810 – 1087	278	Protein P3		PRO_0000040235
	Chain	1088 – 1138	51	6 kDa protein 1		PRO_0000040236
	Chain	1139 – 1783	645	Cytoplasmic inclusion protein		PRO_0000040237
	Chain	1784 – 1834	51	6 kDa protein 2		PRO_0000040238
	Chain	1835 – 2040	206	Viral genome-linked protein		PRO_0000040239
	Chain	2041 – 2275	235	Nuclear inclusion protein A		PRO_0000040240
	Chain	2276 – 2773	498	Nuclear inclusion protein B		PRO_0000040241
	Chain	2774 – 3093	320	Coat protein		PRO_0000040242
Regions
	Domain	1215 – 1366	152	Helicase ATP-binding
	Domain	1367 – 1546	180	Helicase C-terminal
	Domain	2041 – 2257	217	Peptidase C4
	Domain	2516 – 2639	124	RdRp catalytic
	Nucleotide binding	1228 – 1235	8	ATP Potential
	Motif	1316 – 1319	4	DEVH box
	Motif	1883 – 1895	13	Nuclear localization signal Potential
Sites
	Active site	2082	1	For nuclear inclusion protein A activity By similarity
	Active site	2121	1	For nuclear inclusion protein A activity By similarity
	Active site	2193	1	For nuclear inclusion protein A activity By similarity
	Site	403 – 404	2	Cleavage; by P1 proteinase Potential
	Site	809 – 810	2	Cleavage; by HC-pro By similarity
	Site	1087 – 1088	2	Cleavage; by NIa-pro By similarity
	Site	1138 – 1139	2	Cleavage; by NIa-pro By similarity
	Site	1783 – 1784	2	Cleavage; by NIa-pro By similarity
	Site	1834 – 1835	2	Cleavage; by NIa-pro By similarity
	Site	2040 – 2041	2	Cleavage; by NIa-pro By similarity
	Site	2275 – 2276	2	Cleavage; by NIa-pro By similarity
	Site	2773 – 2774	2	Cleavage; by NIa-pro By similarity
Amino acid modifications
	Modified residue	1915	1	O-(5'-phospho-RNA)-tyrosine By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q65730 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 50F775CEF7ABCCB4	FASTA	3,093	348,106
	10 20 30 40 50 60 MQQTHVKQVW RPKTASSKVK TSNMVYLAEE SSPLAKTELK EDAVVAADMS VINADDAVYG 70 80 90 100 110 120 HALEGKYSER KALPARSNET IVSFASGEDG LFLDRAACGS IFKTRTGKDT PIATAIRAAT 130 140 150 160 170 180 RRGLAYDIAA QLYMCPKCCS ASDKVLYFDT NHNDSCQWYL DNCRAVINKD WTLDVIETYN 190 200 210 220 230 240 VFPVLVTEEE ERRTLEAVDI ALKPLGTVPV HDVVQVYDQK IGEHKEVERN QEAAHGSEPA 250 260 270 280 290 300 IITTTPVLRR QCIEKRLLRH VHQANKVIAN TVEIYDLMTE TSQICAEKAI PLVFVDYEKK 310 320 330 340 350 360 KRIRPRVPLR HVLESNNVDP SDDLYADVVP FLKHYGTCGR PVGVINPRDI KPGWSGVVLL 370 380 390 400 410 420 QDELPESLHQ ECVDGVFVVQ GIGPDGQLKN ALKTTTGERI EYYSSKRRMA VNAHVPKAHS 430 440 450 460 470 480 FCKYSSLTET LMELDYLRVI SALADVHDPQ CVECHKERNE RSFIENLKYT QQGAQNLFNA 490 500 510 520 530 540 GTGMGLAFVA SIASGQLMIQ RQQPQSSSSI VDQTPRTNED GSLSHNINLL LTPEVVDIWR 550 560 570 580 590 600 SMKQMVHLPN RKLYMASFND QFGNFDFIPN STLQGVFPDF TMPVTIALND DDKVETNYRH 610 620 630 640 650 660 VDKNSTIETC VEGLYTQFDA AYWTKKAAQV HKIQPIDQCG MEIGNIALKL CHWEGDVALF 670 680 690 700 710 720 SPIIRPTPGH LMFGSTDRLL RIPDMTNARH YVPKVGYCYL YLFALAMNFC DGENRVTVDA 730 740 750 760 770 780 YINKTCRELG AWPKFGEVLR ALDRMATYYG CYDAVVPVML VDHVQRTIHV PSPFGIVQSG 790 800 810 820 830 840 MHMIQINNLG DLIKLDTMGA SELKEYEIGG FRETYKSITK CVKSKSAFME KLNQDNEWLV 850 860 870 880 890 900 DMICNPSTLF VLSQLMDTHG LILKDVENSF DRLAALLALK ELGSALGPLL TTRKRVALYM 910 920 930 940 950 960 QSLSKVDELV PHLGMPTGAM NLLKSEIELI QNAIVEEQDM AEIDRVEGKK SILERRDEMF 970 980 990 1000 1010 1020 APCVYNEFIN SFGYVSLPGI AYRLTYTGVG ARIGRGCEHL KTVWSGSWIP EIHLPENLRS 1030 1040 1050 1060 1070 1080 NTWSAIKKYT VYSGGTAWRY MKLKIVESAT QILVAAVITA IGSWLLKKLL KFIRHEKGRL 1090 1100 1110 1120 1130 1140 NEVVVFQSKQ EELFISKFMA VCFVISTFFS LDMSNAIYSS LTKFRAIFSI LSVGSIYQSG 1150 1160 1170 1180 1190 1200 ALEKLEEQLG HVDTFHEFKL YDHDATHANI APSVQSFGTW LDTRVLAGQQ GCDPLEGRHT 1210 1220 1230 1240 1250 1260 KFEMNKNTRD AIAARVLADK DNEFLVMGHV GCGKSTYFPV ALSKQARVLI CEPTRVLVTN 1270 1280 1290 1300 1310 1320 LHDSMMHTCQ VAPSVMMRNH RCITGSSIMV QTYGFALHYL VNNPENLQQY DFVLFDEVHH 1330 1340 1350 1360 1370 1380 TCAEKVVLYN WLKGRDWGGK IVKLTATDRS PSAEIKAQKS LDIMTLPTMT PLDFVKEQGL 1390 1400 1410 1420 1430 1440 STKADASKHG KVILVFLTSF REVDSCYDEL KRKENFDAIK ADSRNLRNKT SLADLISECK 1450 1460 1470 1480 1490 1500 KEFIYIFATN ILQTGINIEA DVVVDFGYKI VPTYDVDNRM LTTTRKPVNK ADRIQRLGRV 1510 1520 1530 1540 1550 1560 ARMKAGVAMK IGATIDPEAY DDEVTATEAA LLSFAMQVPP VLRNVNLQIF QRITREQVVT 1570 1580 1590 1600 1610 1620 AARFEHQLSY MVWMVNKDGS MPTKLYDLFS PLLLSQGNMR LSPYYSSLYD SDTFMTVKNY 1630 1640 1650 1660 1670 1680 VDIGYLKHDR TTNQRLPFHC HDVSTTFAMK VADRFEDSRA PSTYSIRVPA VNLRHTAVKL 1690 1700 1710 1720 1730 1740 STDPAQVGMI LVVIGEALVH QKNILEQLKS TRTQLDNYNS CILVPNWNVR GKLDDAINRV 1750 1760 1770 1780 1790 1800 ERNVSILENQ KNSVEKMSVA RGYDELKELL EENHAVAAHV MYQKGPQKFI DDVLLQKRDF 1810 1820 1830 1840 1850 1860 SWMPYISVGA ACLMAGCAWY MLYRQRAKHE AKFEGKASRV KASKQKAFDD KMARADNYTY 1870 1880 1890 1900 1910 1920 YETTDELHNH AREWNDYPTD WVDKVRKKAN VHAMQFGREA PRRDVRNDRP FFNFYGIDEK 1930 1940 1950 1960 1970 1980 LYDTVTFHDM AASFSVEQPI TAMEVEEAFE KIYLNRQEDE AFFDHPMPKK ILAEFKGKDG 1990 2000 2010 2020 2030 2040 KVINVEMEPH NPRKANRRGL PVGYADHRGE FRQAKPAEEG PIKFERKALN PKATPYAVFE 2050 2060 2070 2080 2090 2100 SKALYGGPRC YEHITNNQVL LAGPSGYLNG LITGSKLLAP YHFVKDISSD SQDPSRMIAR 2110 2120 2130 2140 2150 2160 FGTYNLGNIL NLQVVKFTMI DLIGLDLPVE FQPRRTLKCF RVPVIGEKAV LVLSRYSKEG 2170 2180 2190 2200 2210 2220 WKSCVSAETE ITPYGENEEL LWRHRITTEV GDCGATMVAL SDQKIVGFHS LGGISMNYFV 2230 2240 2250 2260 2270 2280 PVTQELLDFL SSKTEKPLVP WRFSEDQVDV GGLYIHNDFD KFPFVKTIQK LVGFQNGHMI 2290 2300 2310 2320 2330 2340 KYCGEGFTPV ARSENRLSRQ HVISGQRESF IHFVEASSKW RPLITPMLGR LQPSALNREA 2350 2360 2370 2380 2390 2400 YYKDVLKYDK PIRLGTVHEE AFQSAVINVI RILENAGFER GGVKACFDYG KIFNDLNLDA 2410 2420 2430 2440 2450 2460 AMGALYAGKK KDYFVEATDE EIEEMFLRSA GKICANGHGV WSALLKAELR PAEKVAANKT 2470 2480 2490 2500 2510 2520 RTFTSAPIDI LFGAKAVVDD FNKQFYKRHL LGPWTVGINK FNKGWDLLAR SLMRYEWFID 2530 2540 2550 2560 2570 2580 ADGSQFDSSI TPLLMNAVLT IRLYFMERDD ITELMLRNLY TQIISTCMLA EDGLIVQKHR 2590 2600 2610 2620 2630 2640 GNNSGQPSTV VDNTLCLMIA MEYARQRAIS DGHLNMQMRY VCNGDDLLIN ANEEAKDVVQ 2650 2660 2670 2680 2690 2700 GKYEQYIKEL ELNYCFDDAF QSIEGVEFMS HKFMLRNGIY IPKLARHRIV AILEWQRSAE 2710 2720 2730 2740 2750 2760 PQAIKSAILA ACVEAFGYDD LTELIREYAI SLEPVWGSFL PTDGEIEQLY FEGIAKQEVA 2770 2780 2790 2800 2810 2820 RCLAGVDDVC KFESAASGTN EAVDEVLKAA GDDEALARAN AAATSGATTP AQNVGAGTTT 2830 2840 2850 2860 2870 2880 PAKATPQSGR RPSFGSLIDN PIGGNGVQDV ADRTSGIVFP VPTRKSTSLY LPPKVKLRAT 2890 2900 2910 2920 2930 2940 PERIEKVRKY LPDPQQIDLR YSTQQELNDW IKASADGLGQ TEEAFIDNIL PGWIVHCIVN 2950 2960 2970 2980 2990 3000 TTSSENRKAG SWRCVTNAGT ADEEQVLYDI EPMYSAANPT MRAIMRHFSD LARLVIAESF 3010 3020 3030 3040 3050 3060 KQGRPLIPKG YIKAGVLDAS SAAAACDFVV RDRHDTATFV QVQNQVLVNR VSGITNRLFA 3070 3080 3090 QAMPSAGANE DMARHDAQDA AEGIHNLGGA RAF

References

[1]	"The complete nucleotide sequence and genome organization of the mite-transmitted brome streak mosaic rymovirus in comparison with those of potyviruses." Goetz R., Maiss E. J. Gen. Virol. 76:2035-2042(1995) [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.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z48506 Genomic RNA. Translation: CAA88417.1.
RefSeq	NP_612585.1. NC_003501.1.
3D structure databases
ProteinModelPortal	Q65730.
ModBase	Search...
Protein-protein interaction databases
MINT	MINT-121113.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
InterPro	IPR011545. DNA/RNA_helicase_DEAD/DEAH_N. IPR014001. Helicase_ATP-bd. IPR001650. Helicase_C. 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]
Pfam	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]
PRINTS	PR00966. NIAPOTYPTASE.
SMART	SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. [Graphical view]
SUPFAM	SSF50494. Pept_Ser_Cys. 1 hit.
PROSITE	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]
ProtoNet	Search...

Entry information

Entry name

POLG_BSTV1

Accession

Primary (citable) accession number: Q65730

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 1998
Last sequence update:	November 1, 1996
Last modified:	May 1, 2013
This is version 104 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program