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Protein

RNA1 polyprotein

Gene
N/A
Organism
Grapevine fanleaf virus (GFLV)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

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 sitei1284For picornain 3C-like protease activitySequence analysis1
Active sitei1328For picornain 3C-like protease activitySequence analysis1
Active sitei1420For picornain 3C-like protease activitySequence analysis1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi781 – 788ATPPROSITE-ProRule annotation8

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

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

Keywords - Biological processi

Viral RNA replication

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding

Protein family/group databases

MEROPSiC03.004.

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
OrganismiGrapevine fanleaf virus (GFLV)
Taxonomic identifieri12274 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stagePicornaviralesSecoviridaeComovirinaeNepovirusSubgroup A
Virus hostiVitis rupestris [TaxID: 103352]
Vitis vinifera (Grape) [TaxID: 29760]
Proteomesi
  • UP000009160 Componenti: Genome

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini569 – 1171CytoplasmicSequence analysisAdd BLAST603
Transmembranei1172 – 1192HelicalSequence analysisAdd BLAST21
Topological domaini1193 – 1217LumenalSequence analysisAdd BLAST25

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Host endoplasmic reticulum, Host membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000370451 – 568P1A proteinSequence analysisAdd BLAST568
ChainiPRO_0000037046569 – 1217Putative ATP-dependent helicaseSequence analysisAdd BLAST649
ChainiPRO_00000370471218 – 1241Viral genome-linked proteinAdd BLAST24
ChainiPRO_00000370481242 – 1461Picornain 3C-like proteaseSequence analysisAdd BLAST220
ChainiPRO_00000370491462 – 2284RNA-directed RNA polymeraseSequence analysisAdd BLAST823

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei1218O-(5'-phospho-RNA)-serineBy similarity1

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, Phosphoprotein

Proteomic databases

PRIDEiP29149.

Structurei

3D structure databases

ProteinModelPortaliP29149.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini751 – 919SF3 helicasePROSITE-ProRule annotationAdd BLAST169
Domaini1728 – 1852RdRp catalyticPROSITE-ProRule annotationAdd BLAST125

Sequence similaritiesi

Contains 1 peptidase C3 domain.Curated
Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation
Contains 1 SF3 helicase domain.PROSITE-ProRule annotation

Keywords - Domaini

Transmembrane, Transmembrane helix

Family and domain databases

InterProiIPR000605. Helicase_SF3_ssDNA/RNA_vir.
IPR014759. Helicase_SF3_ssRNA_vir.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
[Graphical view]
PfamiPF00680. RdRP_1. 1 hit.
PF00910. RNA_helicase. 1 hit.
[Graphical view]
PROSITEiPS50507. RDRP_SSRNA_POS. 1 hit.
PS51218. SF3_HELICASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P29149-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MWQVPEGSQC CCTGKSFSNA EAKELRYVCS CWMSTRLVKA EAPPQQSRKS
60 70 80 90 100
GIAPTPLKSK GTIQVSLPKA TGVKPSIHKS KGASVAPAPL LKQRCEVVVQ
110 120 130 140 150
YGPPADIELV YPPLVREEEK SSNIVVLPPT QKVEVRVPVC CAPKWMVAIP
160 170 180 190 200
KPPVKLAPKA SKLRFPKGAV AYNGVNFIDT KGKVVLSEGA KRILRGIRVA
210 220 230 240 250
AKQRLRAARR SAACKKVRAK RALAEFEAIV QSERLDQLKT GFQVVLPAPK
260 270 280 290 300
MSCSLKEAAP STTSVVVVKK RKLPRLPKIL PEQDFSCLEG FDWGEKSHPV
310 320 330 340 350
EVDIEDDWIL VEKPVLKRQA VQTAQGRATE ALTRFAATSG FSLGAHQKVE
360 370 380 390 400
DFASSGEAEY LMAGEFADLC LLSLVYNDAP TLSATIEELR DSKDFLEAIE
410 420 430 440 450
LLKLELAEIP TDSTTCAPFK QWASAAKQMA KGVGTMVGDF TRAAGAAVVI
460 470 480 490 500
SFDMAVEFLQ DKALKFCKRI FDVTMAPYLQ HLASAHSILK KIWEKLSEWM
510 520 530 540 550
ESLKSKASLA LEVMRQHAIF ALGAMVIGGV VVLVEKVLIA AKIIPNCGII
560 570 580 590 600
LGAFLTLFFA SLGLTALECT AEEIFRMHAC CKSAIYSMYS VAEPTMADEG
610 620 630 640 650
ESHTMGATQG LDNAIQALTR VGQSMISFKL GSFSYYAKIA QGFDQLARGK
660 670 680 690 700
RAIGELTSWL IDLVGSIYSQ VSGQESTFFD ELSTIVCLDV RAWLLKSKRV
710 720 730 740 750
RLQVETMAIG DRITLDTIAK LLEEGHKILV TAAGVPRKTS ADFTMCIKEE
760 770 780 790 800
VSKLEEVHAR TACAGINEGM RAFPFWVYIF GASQSGKTTI ANSIIIPALL
810 820 830 840 850
EEMNLPKSSV YSRPKTGGFW SGYARQACVK VDDFYAIEQT PSLASSMIDV
860 870 880 890 900
VNSEPYPLDM AYIHEKGMSM DSPLVVTTAN TAVPPTNSQV VDLPSFYNRR
910 920 930 940 950
AAVLEVRRKD GSFFTPRAYD SCIEVRFMHN KCPYVDSAGV PQGPAVNTPM
960 970 980 990 1000
DEGWITPSEA VAVLKNLLGE HILAEEAKLL EYRERIGNDH PIYNAAKEFI
1010 1020 1030 1040 1050
GNMHYPGQWL TAEQKSTYGI KDDGFSFLAV DGKIYKYNVL GKLNPCESEP
1060 1070 1080 1090 1100
PHPNVIPWLE KKTLEIVHWD VHKHIATGPR NALVACFLQG LVQGQSKVES
1110 1120 1130 1140 1150
VERMGKDSSP EQQNFFKRLS LSERIYLRLC QIRIDNIQKE ELAGSGRGPM
1160 1170 1180 1190 1200
AILRECLMKS KQVVVENYSL LLTLVAILLL ISAAYTLLST VVALAGCSSF
1210 1220 1230 1240 1250
AGGMVAVTAV NNASIPCSEP RLEERYSPRN RFVSRISKIR GEGPSKGQGE
1260 1270 1280 1290 1300
HEELVTELYY YCDGVKKLIS TCWFKGRSLL MTRHQALAVP IGNEIEVIYA
1310 1320 1330 1340 1350
DGTTKKLVWP GRQEDGNCKG FVEFPENELV VFEHPHLLTL PIKYEKYFVD
1360 1370 1380 1390 1400
DADRQISPNV AVKCCVARLE DGIPQFHFWS KYATARSEVH TLKDEGGGNV
1410 1420 1430 1440 1450
YQNKIRRYIV YAHEAKKYDC GALAVAVIQG IPKVIAMLVS GNRGVTYSSV
1460 1470 1480 1490 1500
IPNYSSSFIR GEVPYVPEDG LVSRGYRKVG YLHASDAPHV PSKTSFMKVP
1510 1520 1530 1540 1550
DELCFPYPDP KQPAILSAED ERLKGTIHEG YTPLRDGMKK FAEPMYLLEE
1560 1570 1580 1590 1600
KLLDEVAGDM VQTWYDPGEF LEDISLDQAI NGDMDEEYFD PLVMDTSEGY
1610 1620 1630 1640 1650
PDVLDRKPGE KGKARFFVGE PGNRAFVAGC NPEKAYYQLE EDSKTKIPSL
1660 1670 1680 1690 1700
VSIETPKDER LKRSKIDTPG TRLFSVLPLA YNLLLRVKFL SFSRLLMKKR
1710 1720 1730 1740 1750
GHLPCQVGIN PYSREWTDLY HRLGELSDVG YNCDYKAFDG LITEQILSTI
1760 1770 1780 1790 1800
ADMINAGYRD PVGNRQRKNL LLAICGRLSI CGNQVYATEA GIPSGCALTV
1810 1820 1830 1840 1850
VLNSIFKELL MRYCFKKIVP PVYKECFDRC VVLITYGDDN VFTVAQSVMQ
1860 1870 1880 1890 1900
YFTGDALKMQ MAKLGVTITD GKDKSLSTIP ARPLLELEFL KRGFVRSSGG
1910 1920 1930 1940 1950
MINAPLEKLS IMSSLVYIRS DGSDMLQKLL DNVNTALVEL YLHGDRTYFE
1960 1970 1980 1990 2000
SVRAFYFEKL PPGAYKELTT WFQAESFHEC QKSGESGYKP QGLIEISHGA
2010 2020 2030 2040 2050
AFASFTQQAG TELEKHDICP GLSIAGTKYI ATENEIVLSL SSVLPGDRNV
2060 2070 2080 2090 2100
FKLDLPCGDG IGRLPSKCSI LNLRKPGLVM RLCKRAQDEK KTLVIRDERP
2110 2120 2130 2140 2150
YIGAWAVACI CGESFGFGQQ SVLALYANLL GPNQRNGLAS YFSDFESPIH
2160 2170 2180 2190 2200
IKKVHAKTNS YEGGEALKEI FTFCETIFYE ATEMDTRKVM LQNQPDVYPS
2210 2220 2230 2240 2250
ISLVGGVCFP NEGGEPGAMY SETDVTMARE VQGVYVSEAC VKCCRRCVGV
2260 2270 2280
ATRVVTDTQL FGNNLLKTHL KALRKIQNHT CLRK
Length:2,284
Mass (Da):252,932
Last modified:December 1, 1992 - v1
Checksum:i75C6DEE1F45636E9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D00915 Genomic RNA. Translation: BAA00761.1.
PIRiJQ1373. GNVVGV.
RefSeqiNP_619689.1. NC_003615.1.

Genome annotation databases

GeneIDi1494095.
KEGGivg:1494095.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D00915 Genomic RNA. Translation: BAA00761.1.
PIRiJQ1373. GNVVGV.
RefSeqiNP_619689.1. NC_003615.1.

3D structure databases

ProteinModelPortaliP29149.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiC03.004.

Proteomic databases

PRIDEiP29149.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi1494095.
KEGGivg:1494095.

Family and domain databases

InterProiIPR000605. Helicase_SF3_ssDNA/RNA_vir.
IPR014759. Helicase_SF3_ssRNA_vir.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
[Graphical view]
PfamiPF00680. RdRP_1. 1 hit.
PF00910. RNA_helicase. 1 hit.
[Graphical view]
PROSITEiPS50507. RDRP_SSRNA_POS. 1 hit.
PS51218. SF3_HELICASE_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPOL1_GFLV
AccessioniPrimary (citable) accession number: P29149
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: December 1, 1992
Last modified: September 7, 2016
This is version 101 of the entry and version 1 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.