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UniProtKB - Q9YJW3 (POL1_BAYMY)
Protein
Genome polyprotein 1
Gene
N/A
Organism
Barley yellow mosaic virus (isolate China/Yancheng/1998) (BaYMV)
Status
Functioni
Has helicase activity. It may be involved in replication (By similarity).
By similarityBoth 6K peptides are indispensable for virus replication.
By similarityHas proteolytic activity.
By similarityCatalytic activityi
- EC:2.7.7.48PROSITE-ProRule annotation
- 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. EC:3.4.22.44
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Active sitei | 1404 | For nuclear inclusion protein A activityPROSITE-ProRule annotation | 1 | |
Active sitei | 1440 | For nuclear inclusion protein A activityPROSITE-ProRule annotation | 1 | |
Active sitei | 1507 | For nuclear inclusion protein A activityPROSITE-ProRule annotation | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 487 – 494 | ATPPROSITE-ProRule annotation | 8 |
GO - Molecular functioni
- ATP binding Source: UniProtKB-KW
- cysteine-type peptidase activity Source: InterPro
- helicase activity Source: UniProtKB-KW
- hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides Source: InterPro
- RNA binding Source: InterPro
- RNA-directed 5'-3' RNA polymerase activity Source: UniProtKB-KW
- structural molecule activity Source: InterPro
GO - Biological processi
- RNA-protein covalent cross-linking Source: UniProtKB-KW
- transcription, DNA-templated Source: InterPro
- viral RNA genome replication Source: InterPro
Keywordsi
Molecular function | Helicase, Hydrolase, Nucleotidyltransferase, RNA-directed RNA polymerase, Transferase |
Biological process | Viral RNA replication |
Ligand | ATP-binding, Nucleotide-binding |
Names & Taxonomyi
Protein namesi | Recommended name: Genome polyprotein 1Cleaved into the following 8 chains: Alternative name(s): VPg Alternative name(s): NIa-pro Alternative name(s): RNA-directed RNA polymerase Alternative name(s): Coat protein |
Organismi | Barley yellow mosaic virus (isolate China/Yancheng/1998) (BaYMV) |
Taxonomic identifieri | 652104 [NCBI] |
Taxonomic lineagei | Viruses › Riboviria › Orthornavirae › Pisuviricota › Stelpaviricetes › Patatavirales › Potyviridae › Bymovirus › |
Virus hosti | Hordeum vulgare (Barley) [TaxID: 4513] |
Proteomesi |
|
Subcellular locationi
- Virion Curated
Keywords - Cellular componenti
Capsid protein, Helical capsid protein, VirionPTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_5000064773 | 1 – 328 | Protein P3Add BLAST | 328 | |
ChainiPRO_5000064774 | 329 – 394 | 6 kDa protein 1Add BLAST | 66 | |
ChainiPRO_5000064775 | 395 – 1053 | Cytoplasmic inclusion proteinAdd BLAST | 659 | |
ChainiPRO_5000064776 | 1054 – 1175 | 6 kDa protein 2Add BLAST | 122 | |
ChainiPRO_5000064777 | 1176 – 1362 | Viral genome-linked proteinAdd BLAST | 187 | |
ChainiPRO_5000064778 | 1363 – 1586 | Nuclear inclusion protein AAdd BLAST | 224 | |
ChainiPRO_5000064779 | 1587 – 2113 | Nuclear inclusion protein BAdd BLAST | 527 | |
ChainiPRO_5000064780 | 2114 – 2410 | Capsid proteinAdd BLAST | 297 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 1234 | O-(5'-phospho-RNA)-tyrosineBy similarity | 1 |
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
The viral RNA1 of bymoviruses is expressed as a single polyprotein which undergoes post-translational proteolytic processing by the main proteinase NIa-pro resulting in the production of at least eight individual proteins.Curated
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sitei | 328 – 329 | CleavageSequence analysis | 2 | |
Sitei | 394 – 395 | CleavageSequence analysis | 2 | |
Sitei | 1053 – 1054 | CleavageSequence analysis | 2 | |
Sitei | 1175 – 1176 | CleavageSequence analysis | 2 | |
Sitei | 1338 – 1339 | CleavageSequence analysis | 2 | |
Sitei | 1586 – 1587 | CleavageSequence analysis | 2 | |
Sitei | 2114 – 2115 | CleavageSequence analysis | 2 |
Keywords - PTMi
Covalent protein-RNA linkage, PhosphoproteinProteomic databases
PRIDEi | Q9YJW3 |
Structurei
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 474 – 632 | Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST | 159 | |
Domaini | 647 – 813 | Helicase C-terminalPROSITE-ProRule annotationAdd BLAST | 167 | |
Domaini | 1359 – 1573 | Peptidase C4PROSITE-ProRule annotationAdd BLAST | 215 | |
Domaini | 1857 – 1980 | RdRp catalyticPROSITE-ProRule annotationAdd BLAST | 124 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 1 – 21 | DisorderedSequence analysisAdd BLAST | 21 | |
Regioni | 2175 – 2200 | DisorderedSequence analysisAdd BLAST | 26 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 583 – 586 | DEAH box | 4 |
Sequence similaritiesi
Belongs to the bymoviruses polyprotein 1 family.Curated
Family and domain databases
Gene3Di | 2.40.10.10, 1 hit 3.30.70.270, 1 hit 3.40.50.300, 2 hits |
InterProi | View protein in InterPro IPR043502, DNA/RNA_pol_sf IPR014001, Helicase_ATP-bd IPR027417, P-loop_NTPase IPR009003, Peptidase_S1_PA IPR043504, Peptidase_S1_PA_chymotrypsin IPR001592, Poty_coat IPR001730, Potyv_NIa-pro_dom IPR013648, PP_Potyviridae IPR043128, Rev_trsase/Diguanyl_cyclase IPR001205, RNA-dir_pol_C IPR007094, RNA-dir_pol_PSvirus |
Pfami | View protein in Pfam PF00863, Peptidase_C4, 1 hit PF00767, Poty_coat, 1 hit PF08440, Poty_PP, 1 hit PF00680, RdRP_1, 1 hit |
SMARTi | View protein in SMART SM00487, DEXDc, 1 hit |
SUPFAMi | SSF50494, SSF50494, 1 hit SSF52540, SSF52540, 1 hit SSF56672, SSF56672, 1 hit |
PROSITEi | View protein in 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 |
i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
Q9YJW3-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MEQTLAQAVS RRNKTDTPMA EERKHFSPMN FSANFVAPEL FYSANVRKIK
60 70 80 90 100
NIFKERSTTR FLDAISSDFE LVAFLTLSPA HLMQLETVLR QEMRSCAVPI
110 120 130 140 150
VTSDASFETV AVIKTALDGM RFHFGYTTLE KGWISMMRHA ESCLQESSSS
160 170 180 190 200
AVNDLQTPIK RVGSLLLSGK NRVEGCELSV LNLTARRFRI EYGLNGTYFG
210 220 230 240 250
EHVAMLRDLK RYIYGTVPKE FLWAKTKKHL PFTIPAWITR TPIDCFLFCL
260 270 280 290 300
RVIPILHRFG VAMSLIYFSC VAALNFPAFM GFLFKRQFAK YLAHSFAKHS
310 320 330 340 350
IYFMFLTIVA ILWSFRTFTS QKPKIVLQAR STAEKEKKLM MILASVVGIT
360 370 380 390 400
YLFDYDIAEA LGNCLHKISR LSSYLLDDHQ GIASRMFGAS YGLQAGDSAE
410 420 430 440 450
DAVTTIISDL LSVTFKIVDE DASQGTVEDA SETTFHSWVG VNTLAGRNMS
460 470 480 490 500
RPLQYSVNKT YALTPQNVQL QARAMADANN CWSMVVGHTG SGKSTYLPVQ
510 520 530 540 550
YSNYLSTKSD RRQQILICEP TQAATENVCA GVAANLGRAV YGRHEGWSRM
560 570 580 590 600
GDHCIQVMTY GSALQCHAMD PSFISTFDAI FLDEAHDVKE HSLVFESICD
610 620 630 640 650
TFKSVRKFYV SATPRDGSVC PEAARKYPLH VETSVCDSYR KFIAAQGGGD
660 670 680 690 700
LLDISKHDTA LVFLAGRPEC IKAANAWNAS VTGEKRAFSL SSDNFATDFS
710 720 730 740 750
MLTERLKTHK TIIFTTNIIE TGVTLSVDCV VDFGHTMRPC LDLNQKSLRL
760 770 780 790 800
DRRKVTRNER QQRIGPTGRL KDGYAIVCGD VDRAVNVISP DVLYGAALLS
810 820 830 840 850
FKHNVPFYMN ETFESSWLKG VTKAQADTMT IFKLPIFLTR DLINADGSVA
860 870 880 890 900
KEFLDVLKKH QFTTSDIKQA PSITAKHIFP TWASYFSLHQ ALHYGDDKDE
910 920 930 940 950
IPHELRYARV PFSVTTLSKF DWPALALACE KHRASMSNVF AGIEEPARVV
960 970 980 990 1000
TLQTNPANIQ ASITHLMHMS KNYKTLIENN QHVRQSMMTN VMYKWFSSTR
1010 1020 1030 1040 1050
ITKDLDRNLR RCTDNLAVVE ATLSSLRQIL AGNTQVHATP HMQSTLEDII
1060 1070 1080 1090 1100
GLQASDTLTE ESLASALGIF VPKSNLFLLL ATKGFKLVYV ICILLLVNLV
1110 1120 1130 1140 1150
YIGLRKWREH LKQKGSDEIL TNTMPVSEGG EILAEVMKME PKMRKNIKRD
1160 1170 1180 1190 1200
MDEAVESKLC GFTFVFPDDD KIGLEGKGNK YRPREDARLM YSTREDATFD
1210 1220 1230 1240 1250
AWNEKAKERR KKVTDKSEPE LRRAYEKRPY FNFYDLQTDS NILEAIFYTT
1260 1270 1280 1290 1300
EGDEFFRTAD PNKDMNLVAD KLRSFLDTKL VVGHHQRKLL EETAQVVIKD
1310 1320 1330 1340 1350
TKGTAHKMEI SQHDPDCLKQ NGSGKVGYPE HRGQFRQEGV AITSDYDLGV
1360 1370 1380 1390 1400
EFGTDTDNIT LEASTGILLS QVGVDVATRV GRISIGTFNM NCYFYNDWIL
1410 1420 1430 1440 1450
VPGHLQDRSG NVTIQFPDQT VQTTTDALNA NGVKRFYGLD VIAIRRPAIL
1460 1470 1480 1490 1500
RPRTKLVKAF AIEEPVIAQM VFVDAQGVRK FTQSDWARKG ENSGRWSHKI
1510 1520 1530 1540 1550
STVLGMCGCQ FWTLERQIDG IHVATNYTKK RNEFQPFTQE VVDFINGPGT
1560 1570 1580 1590 1600
KIPYCPWVFD RPACGYASHT ALFEKPTTLT DVIHMQASDG LHNINNAIEG
1610 1620 1630 1640 1650
FGSSLRGQLV SPPTESTRQR FDKLFGSGSF ELIGQMNKGL IDKHVIVGEN
1660 1670 1680 1690 1700
DDVYDFMREH PTFTWLKDFM NEYAPSVLSY SAYYKDLCKY NRAKHVLTYN
1710 1720 1730 1740 1750
PEELHYATKG LIKMLEDAGL TQGSVRTPQQ VISDIQWNTS AGPSYQGKKR
1760 1770 1780 1790 1800
DLCAHLSDDE VLHLAEVCRQ QFLEGKSTGV WNGSLKAELR TIEKVEPEKT
1810 1820 1830 1840 1850
RVFTASPITS LFAMKFYVDD FNKKFYATNL KAPHTVGINK FGRGWERLHD
1860 1870 1880 1890 1900
KLNRPGWLHG SGDGSRFDSS IDPFFFDVVK TIRKHFLPSE HHKAIDLIYD
1910 1920 1930 1940 1950
EILNTTICLA NGMVIKKNVG TQRQPSTVVD NTLVLMTAFL YAYIHKTGDR
1960 1970 1980 1990 2000
ELALLNERFI FVCNGDDNKF AISPQFDEEF GHDFSPELVE LGLTYEFDDI
2010 2020 2030 2040 2050
TSDICENPYM SLTMVKTPFG VGFSLPVERI IAIMQWSKKG GVLHSYLAGI
2060 2070 2080 2090 2100
SAIYESFNTP KLFKSIYAYL LWLTEEHEAE ILAAMTQSST ALPIPSMLDV
2110 2120 2130 2140 2150
YRLHYGDDEI WLQAADPLTD AQKEAAHTAA ADRARLDLAD ADRRRKVEAD
2160 2170 2180 2190 2200
RVEAARVKKA ADAALKPVNL TATRMPTEDD GKLKTPSGAR IPSSAADGNW
2210 2220 2230 2240 2250
SVPATKQVNA GLTLKIPLNK LKSVPKSVME HNNSVALESE LKAWTDAVRT
2260 2270 2280 2290 2300
SLGITTDEAW IDALIPFIGW CCNNGTSDKH AENQVMQIDS GKGAVTEMSL
2310 2320 2330 2340 2350
SPFIVHARMN GGLRRIMRNY SDETVLLITN NKLVAHWSMK HGASANAKYA
2360 2370 2380 2390 2400
FDFFVPRSWM NPQDIEVSKQ ARLAALGTGT YNTMLTSDTT NLRKTTNHRV
2410
LDSDGHPELT
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AJ132268 Genomic RNA Translation: CAA10637.1 |
RefSeqi | NP_148999.1, NC_002990.1 |
Genome annotation databases
GeneIDi | 963861 |
KEGGi | vg:963861 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AJ132268 Genomic RNA Translation: CAA10637.1 |
RefSeqi | NP_148999.1, NC_002990.1 |
3D structure databases
ModBasei | Search... |
SWISS-MODEL-Workspacei | Submit a new modelling project... |
Proteomic databases
PRIDEi | Q9YJW3 |
Genome annotation databases
GeneIDi | 963861 |
KEGGi | vg:963861 |
Family and domain databases
Gene3Di | 2.40.10.10, 1 hit 3.30.70.270, 1 hit 3.40.50.300, 2 hits |
InterProi | View protein in InterPro IPR043502, DNA/RNA_pol_sf IPR014001, Helicase_ATP-bd IPR027417, P-loop_NTPase IPR009003, Peptidase_S1_PA IPR043504, Peptidase_S1_PA_chymotrypsin IPR001592, Poty_coat IPR001730, Potyv_NIa-pro_dom IPR013648, PP_Potyviridae IPR043128, Rev_trsase/Diguanyl_cyclase IPR001205, RNA-dir_pol_C IPR007094, RNA-dir_pol_PSvirus |
Pfami | View protein in Pfam PF00863, Peptidase_C4, 1 hit PF00767, Poty_coat, 1 hit PF08440, Poty_PP, 1 hit PF00680, RdRP_1, 1 hit |
SMARTi | View protein in SMART SM00487, DEXDc, 1 hit |
SUPFAMi | SSF50494, SSF50494, 1 hit SSF52540, SSF52540, 1 hit SSF56672, SSF56672, 1 hit |
PROSITEi | View protein in 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 |
MobiDBi | Search... |
Entry informationi
Entry namei | POL1_BAYMY | |
Accessioni | Q9YJW3Primary (citable) accession number: Q9YJW3 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | November 30, 2010 |
Last sequence update: | May 1, 1999 | |
Last modified: | February 23, 2022 | |
This is version 109 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Viral Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- SIMILARITY comments
Index of protein domains and families