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Protein

RNA1 polyprotein

Gene
N/A
Organism
Tobacco ringspot virus (strain Bud Blight) (TobRV) (TRSV)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Picornain 3C-like protease is a thiol protease that cleaves the P1 and P2 polyproteins.By similarity

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).PROSITE-ProRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei1309For picornain 3C-like protease activitySequence analysis1
Active sitei1348For picornain 3C-like protease activitySequence analysis1
Active sitei1444For picornain 3C-like protease activitySequence analysis1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi813 – 820ATPPROSITE-ProRule annotation8

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHelicase, Hydrolase, Nucleotidyltransferase, Protease, RNA-binding, RNA-directed RNA polymerase, Thiol protease, Transferase
Biological processViral RNA replication
LigandATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
RNA1 polyprotein
Alternative name(s):
P1
Cleaved into the following 5 chains:
P1A protein
Short name:
1A
Alternative name(s):
Protease cofactor
Alternative name(s):
1B
Membrane-binding protein
NTP-binding protein
Short name:
NTB
Alternative name(s):
1C-VPg
Picornain 3C-like protease (EC:3.4.22.-)
Short name:
3C-like protease
Alternative name(s):
1D-PRO
Alternative name(s):
1E-POL
OrganismiTobacco ringspot virus (strain Bud Blight) (TobRV) (TRSV)
Taxonomic identifieri282064 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stagePicornaviralesSecoviridaeComovirinaeNepovirus
Virus hostiAllium porrum (Leek) (Allium ampeloprasum var. porrum) [TaxID: 4681]
Apium graveolens (Celery) [TaxID: 4045]
Beta vulgaris (Sugar beet) [TaxID: 161934]
Fraxinus (ash trees) [TaxID: 38871]
Lactuca sativa (Garden lettuce) [TaxID: 4236]
Narcissus pseudonarcissus (Daffodil) [TaxID: 39639]
Phaseolus vulgaris (Kidney bean) (French bean) [TaxID: 3885]
Robinia pseudoacacia (Black locust) [TaxID: 35938]
Rubus (bramble) [TaxID: 23216]
Solanum lycopersicum (Tomato) (Lycopersicon esculentum) [TaxID: 4081]
Solanum tuberosum (Potato) [TaxID: 4113]
Tulipa [TaxID: 13305]
Vitis sp. (Grape) [TaxID: 3604]

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini588 – 1195CytoplasmicSequence analysisAdd BLAST608
Transmembranei1196 – 1216HelicalSequence analysisAdd BLAST21
Topological domaini1217 – 1243LumenalSequence analysisAdd BLAST27

GO - Cellular componenti

Keywords - Cellular componenti

Host endoplasmic reticulum, Host membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000370551 – 587P1A proteinSequence analysisAdd BLAST587
ChainiPRO_0000037056588 – 1243Putative ATP-dependent helicaseSequence analysisAdd BLAST656
ChainiPRO_00000370571244 – 1267Viral genome-linked proteinBy similarityAdd BLAST24
ChainiPRO_00000370581268 – 1484Picornain 3C-like proteaseSequence analysisAdd BLAST217
ChainiPRO_00000370591485 – 2304RNA-directed RNA polymeraseSequence analysisAdd BLAST820

Post-translational modificationi

Specific enzymatic cleavages by picornain 3C-like protease in vivo yield mature proteins. Picornain 3C-like protease is autocatalytically processed (By similarity).By similarity
VPg is uridylylated by the polymerase and is covalently linked to the 5'-end of genomic RNA. This uridylylated form acts as a nucleotide-peptide primer for the polymerase (By similarity).By similarity

Keywords - PTMi

Covalent protein-RNA linkage

Proteomic databases

PRIDEiQ88893

Structurei

3D structure databases

ProteinModelPortaliQ88893
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini786 – 950SF3 helicasePROSITE-ProRule annotationAdd BLAST165
Domaini1762 – 1900RdRp catalyticPROSITE-ProRule annotationAdd BLAST139

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Family and domain databases

InterProiView protein in InterPro
IPR000605 Helicase_SF3_ssDNA/RNA_vir
IPR014759 Helicase_SF3_ssRNA_vir
IPR001205 RNA-dir_pol_C
IPR007094 RNA-dir_pol_PSvirus
PfamiView protein in Pfam
PF00680 RdRP_1, 1 hit
PF00910 RNA_helicase, 1 hit
PROSITEiView protein in PROSITE
PS50507 RDRP_SSRNA_POS, 1 hit
PS51218 SF3_HELICASE_2, 1 hit

Sequencei

Sequence statusi: Complete.

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

Q88893-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGFTCPNSDC LYSRSEWSNR ALREEGLSFS MRCPGACCGA MLVRKQQEPE
60 70 80 90 100
AVDQRHSPER VRIAPHQNVC AGLPGVGPSK CPKHSQVPLA PKSKSVPARA
110 120 130 140 150
TVSASPLKKQ HCDVVVTVGP PADLELVYPA LVSKGSANPP KVGKKSFNEA
160 170 180 190 200
LLEKRAAYQV RTAVPPPGPI RVVKTAATPV KVEKVRFPKG AVAFNGANFI
210 220 230 240 250
DAKGYVVLSA GALKILRGVQ KLRRQQARSA RRMAACRRVR LAVFAARLPS
260 270 280 290 300
LLRKADEATS GGFKYVDLNA PRVVRKAEKR PKKKPAKKAV RPASPVEEEI
310 320 330 340 350
NWDDFIIPES ERTASPMKEE KPKRSLVPNS LGFGWWRPAS GNLWDVVSQC
360 370 380 390 400
QRACEGTFLE ASAEACLVRA GVDDVALSVW ARISKSVVQL SAYYDVNTLL
410 420 430 440 450
ENYTALSECT MDELQSVAVQ LDSEYQELGP PTHFTCGLSN WARGAGKILY
460 470 480 490 500
NFVAPTVEGI AGAGCRIVER AYELSKTVID EIFSKMKSLF YDCFGNLFGH
510 520 530 540 550
LNVLLSTIDS FWARASTWIM NILEKTHDCL KVLRDSAVWS LLLILVGGLI
560 570 580 590 600
LLSERFLQSI GIISKPGTIL GIFLATFLGI FGYTFFRKDD TLVSDLLCAF
610 620 630 640 650
KIAITNLFRT KPGPPGSPII VDGDVVIPES AVAMSTCSFM GGLDIAIAAI
660 670 680 690 700
GNVGASILGF KVGALQYAAK IATCLDQLRK GKDVLKEMTC WIIETLGALW
710 720 730 740 750
NKMTGREATF FDEVSAIVAV DIREWLEESQ NLCLAAQTFS IGDKIVLEQC
760 770 780 790 800
ERLIADGHKL LRGMGDADRK LSSSFLSTVQ RKVSDLEKIH TQSVRAGYFE
810 820 830 840 850
GRRMEPFWVY IHGPSHCGKS LLMEPMSREL LRAGGFSESS IYTKNSCDKY
860 870 880 890 900
WSRYRRQACV QIDDLSAGKT DPSLESQLIN LVASKEVPLD MAEVEDKGIL
910 920 930 940 950
FDSAILVTSS NTAHVPTNAN VNHAEAYKNR MNVVIQCRRK PEYSPMGMEL
960 970 980 990 1000
EGTFQPFDPR NPQASIECML QHRETHAPIT GWISAGAAMA EAVNQFRLHR
1010 1020 1030 1040 1050
EKEMILQSNH LSSFRPAHPI YTECATFLSM YARDASFVPP VDLGCKWEIP
1060 1070 1080 1090 1100
SGYMTIAAVD GRVFGFSQLG VCTEISKQMK FTEEMEQYTL DKFAPDITKT
1110 1120 1130 1140 1150
MASQSRFKLV GAFLKGMIRE EDNVVSLTSL GPKSTATQRE FFETLGLAER
1160 1170 1180 1190 1200
VYLRAVQKKV NKIRTDPAFD VEALHARLLS TIATSYEYVR TYGPKIFPIL
1210 1220 1230 1240 1250
MGFVCVVFAC YGFIMPLLSF ASGGSAVGGM VAMEQIAAAS VVSSGSSPVA
1260 1270 1280 1290 1300
HRNRAPPVQP RYARHRLAGA SAEDAYAYEE MMVVLYVDST VAPVVNAVRG
1310 1320 1330 1340 1350
PGRQFFNSHQ ALMIPNNSTV VAHFSTRDVV EIHWEHDVVR KGEKKDTEII
1360 1370 1380 1390 1400
QYRCPSIPEL PSRCKKYFEY DLERDFPGPF TLDASCYRMQ SPGKIDIELV
1410 1420 1430 1440 1450
SWTDHDRELR TRPLVIADPF GEDRYRREIP QYIQYGRPDQ LHDCGAICVA
1460 1470 1480 1490 1500
KIGGQHRIVG LVISTDKHNT GVGLLPSALH MTTCSLSYVP EEWEEAPRGL
1510 1520 1530 1540 1550
KKLGWNDRSE LPHMPRKTQY VAVNEDLAIP FDNPKIPSVL VSDDPRTVGT
1560 1570 1580 1590 1600
PVEGKDPVLV AMEKFYEPMT DFTEEEVRPG QTEVSLFEQV CDDIVQTWFD
1610 1620 1630 1640 1650
AGAEFEDVED DVVINGDDDF DKLIMDTSEG YPYVLERTHG EKGKTRYFEG
1660 1670 1680 1690 1700
GPGAYTLKPG TSVYNDYHKL QEEVQVEGGI PEMVCIECPK DELLVERKVL
1710 1720 1730 1740 1750
QKLGTRNFEI LELPKNMLFR KKFLHWALFL SDMRWCLPCQ VGIVVQGREW
1760 1770 1780 1790 1800
GLLMDRLAAK NSVAYNCDYS KFDGLMSCQV LDAIGKMVNK CYSNANPNLK
1810 1820 1830 1840 1850
KKGKGELPGS PPQLARYNLL MSIFGRKCLA RSQVFEVRGG IRRGALTVLL
1860 1870 1880 1890 1900
NSVFNEILIR YVYKTVIPSP EFNRFETFVT LVVYGDDNLI AVDPSMQKIF
1910 1920 1930 1940 1950
TGEVIKKTLA RKKITITDGS DKLSPVLEAK PLAQLDFLKR SFLVSDSGQV
1960 1970 1980 1990 2000
MPALDRTCIY SSLLYLRSAD CDPIPLLHQN VQNALQELYY RQDREEFDNL
2010 2020 2030 2040 2050
RTFYLERLPM WRNGQHRLLD WNQCAEHWRA RYTGCPSDNP AGVLDMLVDP
2060 2070 2080 2090 2100
RCKSFMLPAG PANWSMPIAD RIFVCGPKFS ASGPSYTLCF NRLAAGETGV
2110 2120 2130 2140 2150
QIKPVHAATQ GAMPTAKFVE SFRSIKKRPE LELAISAYES GSNLYFKGCA
2160 2170 2180 2190 2200
PYNDIWACAI SFCSAFGYAQ KQVLLHMYDN CKRLGASSLR SYFNKSLVGD
2210 2220 2230 2240 2250
GCARRCEIHT TPAIAKQVER LLPQVQCKHC EYDPEFASKP TTQLRKCTDP
2260 2270 2280 2290 2300
GVDGGKAMYI VRGLGRTAAK LVCSDICDGH LMSCNTSFDK MVVNLFRRSC

FKCL
Length:2,304
Mass (Da):256,618
Last modified:November 1, 1996 - v1
Checksum:i133C5E6441DC4186
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U50869 Genomic RNA Translation: AAB03785.1
RefSeqiNP_919040.1, NC_005097.1

Genome annotation databases

GeneIDi2943107
KEGGivg:2943107

Similar proteinsi

Entry informationi

Entry nameiPOL1_TRSVB
AccessioniPrimary (citable) accession number: Q88893
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 19, 2004
Last sequence update: November 1, 1996
Last modified: April 12, 2017
This is version 89 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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