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Genome polyprotein [Cleaved into: Putative leader protein; Capsid protein 1 (CP-1) (22.5 kDa protein) (Coat protein 1); Capsid protein 2 (CP-2) (26 kDa protein) (Coat protein 2); Capsid protein 3 (CP-3) (31 kDa protein) (Coat protein 3); Putative helicase (EC 3.6.4.-) (Putative NTP-binding protein); Probable picornain 3C-like protease (3C-like protease) (EC 3.4.22.-); Probable RNA-directed RNA polymerase (EC 2.7.7.48)]

 POLG_PYFV1              Reviewed;        3027 AA.
Q05057;
01-FEB-1994, integrated into UniProtKB/Swiss-Prot.
01-FEB-1994, sequence version 1.
23-MAY-2018, entry version 106.
RecName: Full=Genome polyprotein;
Contains:
RecName: Full=Putative leader protein;
Contains:
RecName: Full=Capsid protein 1;
Short=CP-1;
AltName: Full=22.5 kDa protein;
AltName: Full=Coat protein 1;
Contains:
RecName: Full=Capsid protein 2;
Short=CP-2;
AltName: Full=26 kDa protein;
AltName: Full=Coat protein 2;
Contains:
RecName: Full=Capsid protein 3;
Short=CP-3;
AltName: Full=31 kDa protein;
AltName: Full=Coat protein 3;
Contains:
RecName: Full=Putative helicase;
EC=3.6.4.-;
AltName: Full=Putative NTP-binding protein;
Contains:
RecName: Full=Probable picornain 3C-like protease;
Short=3C-like protease;
EC=3.4.22.-;
Contains:
RecName: Full=Probable RNA-directed RNA polymerase;
EC=2.7.7.48;
Parsnip yellow fleck virus (isolate P-121) (PYFV).
Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage;
Picornavirales; Secoviridae; Sequivirus.
NCBI_TaxID=33762;
NCBI_TaxID=40954; Aethusa cynapium (Fool's parsley).
NCBI_TaxID=40922; Anethum graveolens (Dill).
NCBI_TaxID=40888; Anthriscus cerefolium (chervil).
NCBI_TaxID=48027; Anthriscus sylvestris.
NCBI_TaxID=4045; Apium graveolens (Celery).
NCBI_TaxID=105274; Chaerophyllum temulum.
NCBI_TaxID=4047; Coriandrum sativum (Coriander) (Chinese parsley).
NCBI_TaxID=4039; Daucus carota (Wild carrot).
NCBI_TaxID=40919; Heracleum sphondylium.
NCBI_TaxID=305795; Oenanthe aquatica.
NCBI_TaxID=4041; Pastinaca sativa (Wild parsnip) (Anethum pastinaca).
NCBI_TaxID=49576; Torilis japonica.
[1]
NUCLEOTIDE SEQUENCE [GENOMIC RNA].
PubMed=1469358; DOI=10.1099/0022-1317-73-12-3203;
Turnbull-Ross A.D., Reavy B., Mayo M.A., Murant A.F.;
"The nucleotide sequence of parsnip yellow fleck virus: a plant
picorna-like virus.";
J. Gen. Virol. 73:3203-3211(1992).
[2]
PROTEOLYTIC PROCESSING OF POLYPROTEIN, AND PROTEIN SEQUENCE OF
395-404; 589-598 AND 811-820.
PubMed=8468549; DOI=10.1099/0022-1317-74-4-555;
Turnbull-Ross A.D., Mayo M.A., Reavy B., Murant A.F.;
"Sequence analysis of the parsnip yellow fleck virus polyprotein:
evidence of affinities with picornaviruses.";
J. Gen. Virol. 74:555-561(1993).
-!- FUNCTION: Picornain 3C-like protease is a thiol protease that
probably cleaves the polyprotein. {ECO:0000250}.
-!- CATALYTIC ACTIVITY: Nucleoside triphosphate + RNA(n) = diphosphate
+ RNA(n+1). {ECO:0000255|PROSITE-ProRule:PRU00539}.
-!- SUBCELLULAR LOCATION: Capsid protein 1: Virion {ECO:0000305}.
-!- SUBCELLULAR LOCATION: Capsid protein 2: Virion {ECO:0000305}.
-!- SUBCELLULAR LOCATION: Capsid protein 3: Virion {ECO:0000305}.
-!- SUBCELLULAR LOCATION: Putative helicase: Host membrane
{ECO:0000305}; Multi-pass membrane protein {ECO:0000305}.
-!- PTM: Specific enzymatic cleavages by picornain 3C-like protease in
vivo yield mature proteins. Picornain 3C-like protease is
autocatalytically processed (By similarity). {ECO:0000250}.
-----------------------------------------------------------------------
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EMBL; D14066; BAA03151.1; -; Genomic_RNA.
PIR; JQ1917; JQ1917.
RefSeq; NP_619734.1; NC_003628.1.
ProteinModelPortal; Q05057; -.
PRIDE; Q05057; -.
GeneID; 940238; -.
KEGG; vg:940238; -.
OrthoDB; VOG090000LV; -.
Proteomes; UP000007103; Genome.
GO; GO:0033644; C:host cell membrane; IEA:UniProtKB-SubCell.
GO; GO:0016021; C:integral component of membrane; IEA:UniProtKB-KW.
GO; GO:0019028; C:viral capsid; IEA:UniProtKB-KW.
GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
GO; GO:0008234; F:cysteine-type peptidase activity; IEA:UniProtKB-KW.
GO; GO:0003723; F:RNA binding; IEA:InterPro.
GO; GO:0003724; F:RNA helicase activity; IEA:InterPro.
GO; GO:0003968; F:RNA-directed 5'-3' RNA polymerase activity; IEA:UniProtKB-KW.
GO; GO:0005198; F:structural molecule activity; IEA:InterPro.
GO; GO:0006351; P:transcription, DNA-templated; IEA:InterPro.
GO; GO:0039694; P:viral RNA genome replication; IEA:InterPro.
CDD; cd00205; rhv_like; 1.
Gene3D; 2.60.120.20; -; 3.
InterPro; IPR000605; Helicase_SF3_ssDNA/RNA_vir.
InterPro; IPR014759; Helicase_SF3_ssRNA_vir.
InterPro; IPR009003; Peptidase_S1_PA.
InterPro; IPR001676; Picornavirus_capsid.
InterPro; IPR033703; Rhv-like.
InterPro; IPR001205; RNA-dir_pol_C.
InterPro; IPR007094; RNA-dir_pol_PSvirus.
InterPro; IPR029053; Viral_coat.
Pfam; PF00680; RdRP_1; 1.
Pfam; PF00073; Rhv; 1.
Pfam; PF00910; RNA_helicase; 1.
SUPFAM; SSF50494; SSF50494; 1.
PROSITE; PS50507; RDRP_SSRNA_POS; 1.
PROSITE; PS51218; SF3_HELICASE_2; 1.
1: Evidence at protein level;
ATP-binding; Capsid protein; Complete proteome;
Direct protein sequencing; Helicase; Host membrane; Hydrolase;
Membrane; Nucleotide-binding; Nucleotidyltransferase; Protease;
Reference proteome; RNA-directed RNA polymerase; Thiol protease;
Transferase; Transmembrane; Transmembrane helix;
Viral RNA replication; Virion.
CHAIN 1 394 Putative leader protein.
/FTId=PRO_0000041133.
CHAIN 395 588 Capsid protein 1.
/FTId=PRO_0000041134.
CHAIN 589 810 Capsid protein 2.
/FTId=PRO_0000041135.
CHAIN 811 ?1069 Capsid protein 3. {ECO:0000250}.
/FTId=PRO_0000041136.
CHAIN ?1070 ?2006 Putative helicase. {ECO:0000255}.
/FTId=PRO_0000041137.
CHAIN ?2007 ?2214 Probable picornain 3C-like protease.
{ECO:0000250}.
/FTId=PRO_0000041138.
CHAIN ?2215 3027 Probable RNA-directed RNA polymerase.
{ECO:0000250}.
/FTId=PRO_0000041139.
TRANSMEM 1183 1203 Helical. {ECO:0000255}.
TRANSMEM 1210 1230 Helical. {ECO:0000255}.
TRANSMEM 2907 2927 Helical. {ECO:0000255}.
DOMAIN 1441 1607 SF3 helicase. {ECO:0000255|PROSITE-
ProRule:PRU00551}.
DOMAIN 2516 2645 RdRp catalytic. {ECO:0000255|PROSITE-
ProRule:PRU00539}.
NP_BIND 1467 1474 ATP. {ECO:0000255|PROSITE-
ProRule:PRU00551}.
COMPBIAS 1088 1091 Poly-Glu.
COMPBIAS 1829 1832 Poly-Thr.
ACT_SITE 2033 2033 For picornain 3C-like protease activity.
{ECO:0000255}.
ACT_SITE 2068 2068 For picornain 3C-like protease activity.
{ECO:0000255}.
ACT_SITE 2155 2155 For picornain 3C-like protease activity.
{ECO:0000255}.
SITE 394 395 Cleavage.
SITE 588 589 Cleavage.
SITE 810 811 Cleavage.
VARIANT 397 397 I -> F.
VARIANT 962 962 T -> I.
VARIANT 1373 1373 L -> F.
SEQUENCE 3027 AA; 336247 MW; 0C41EB985F405BE2 CRC64;
MSSSNSQNSV NMVDGVDLND PTAVAIAAAS GTWGELDRAS TCMYNFFDVS DVERNPGESS
KQLVSRIKKR AGALLGVSRA FKDTEQVLSA ERCAFKSFSD DEEIMATTFE PLKDRAEITP
TAASKLDKTL EAHRAKFNYM AIDSIRVAVT SLMHQGDSRE CIMYLCDRRF KDPLLGAIAL
IGFTLPGMQT HVYKTGRMMA FSRKEAIAAD RLQLYLYVKG AKLERTQNTP ITVNVRTSLI
FGSNAENLLK CDSQIDTDMN IVSFMAQNQD LFGWLEAAQG GGYVPQSLRS ATTHTSNSVL
LHKWNNPVGS VSQRIASRMI FTKAIDAGTS YEDSDVVGSN AKCPNSIGKN LRIGVAQASI
QNTKDDSTPY SLADFVQDGP IAPVVASLES FMSSPSISQT LPLINDQFTR PIYSRTFEWK
ATDTVGASIF QLELPGDVVG PQASSLFSDT MQRAFCFSSD FELSILLTGN ESYMGALKIV
TDQLRRFHEA KQDDARVFHS MPGRTVFAKD SDGIKIPIEF MSIHKAVSAH DSNSHNALSR
VEARVVTPLS HISLSSPVLS ITIQVFAKNV KADYMMWRSL ETTFPTANAT LPSAVGDNFG
RLRTSQSEIL STSQILGLLT ERAFLGTAKV QQDTGARVII AEFALHPMSS RNVDGTLLLS
QLAALSAMYA FWRGSLVLTF EINCSASTRG KLIVSVTPKG GVALAGITAS HQGYGAEFDL
GTSSTRSFTM PFVSTDEWES IGDDGIMSAF EGVWDCPVAN LLVLHPITSI AESTPSVDIR
CYLHPGPDFQ LRGRRHIGLR AASRPLSIAQ ASPVLSQVDF SLMASISIDA TEESVVVAVP
CAPWYSKEEV DYTLLQNPLH WASRMFTLWR GDIEYRFVVK EEALGDGWQS PISVWHNPNT
QLSKCKITKI SNKKISKETY HGKKFCLMQL KSIDIVAVDD RRFSWRLCKI LDTTKDTAGD
STSPSVTQIT YTGHPPMSSQ TGVVCIKFPK NSIKGKLKVY SKPGENFEFR HLGGVPSLQV
SQMVKYKKPF QNSVPDVFIT PSKESSKKEL GFKPKVVESA AVPKLAVGQA QGLVSKIKGF
GSLWKFDEEE ETLNSELQKM AVEVSGEIDP IQDEGWAKRK INEIVSSVST KLIEASTSIL
SNAATRAIST LFDVMIGKVR GVLSSLVDSI SGAFKMCLGD PKCLCLIGIS ISAVLGYCTL
KLVENSVPDA LGIFKALMMV AITSISALYW PKAAISIVTK YEEQFKDIEN YCSTIYKHIF
LGVSEDKMEG ATPAKACATN FEDLAHGKAQ AGGKSFLELA GLIAYIRLCV VLCKAMNTSF
LEPFTPSNME KQCRTVGGIS IGVKTLCEFK DYIYRMIVGG ITPTSSYVKV SGLTGFDIRE
WFEEVESVTL QETRYTQMGS DEKIKQIRAL YDKGVNVMGK LTMIDSPHLS RVCERSFRLC
KELLDETHRC KGASSTRVDP FHVSLYGSPG VGKSFVMGKL LDDVLDFMSE PQADRCYSKT
PNEEYWSGYI GQTAVKCDDL GQDLSKGFSP TYNQIIQMKT NNCFIVPMAD LANKGRTFTS
KYIFSTTNVP GCGTKHGLAD PGAFMRRRNI FVEVETEGDM IPGSTNHMRF TLLNPLNPDE
RIMKYPARMK YVDFLCVCVA EARVYFETQN LVMETLNGTT KNQEEPSKDV IAILEELGDG
VVEGILEKRK ELLSQFGVMD PPPFDAIELE PGKAQASVCF STDAFGNPLK NPFVELFGKL
RDEFERATKQ EMPDDILTKF GASLTLGEPT VFGYENQCGM HSAKDSNLMS SFFTFIFGKN
LIYKQEQEFL RHIDTLSSMG VLRLVDAVTT TTKGDKKILS FANIYDNQAF EQLGVLERLI
FHLVLATRAA KKGRINGIRE RLANWFTSAR ILSNNILEEL PSPIKMLLVL ATSVGSLYLA
FKGLSGIGSM ILGFTGNFTA KEEDFEMISL NALMGQAKSK GRNFITSGDE LTTRLSRMMS
RASLATGRAQ GGRSHMDTCE ALLARQGQIT NMATGLHLVA TDLGGGFLLA PLHTFAGAEK
DDIFRFQNGA DYYFAFEPKD VSQLSEYDAC IIRTDAIPMK SSIVSIFAKE SQIELLVDMS
AHFVCGPWKV PFGGEFISEQ TVAKRIASFK YFMDEKLYMA INGWSSPFKT EDGQCGSCLV
STSDKLDGKV FCSLVAGTYD RVTGKYVSTY VPITCDMIKK SISLLTGAEF SESQSSICDS
PISDTVAETI KVDQLFSSKP GASGKFGVFG VNDTIGIIDV VGRTFPETTP KSITKSTIVP
SLIQPYMPRK PLTEPAILDP RDVRLGENRY DPMIDGIKKY EEQARPIKIS WRNQIIESMA
AQMQDWETFM VREGYMTMDL PMSVVINGID GVEYYEPLNM STSEGYPLIL NRPKDAHGKE
YLFETMESGE RRIKSAKLEA HYESYGHALQ STEPFPLICI ECPKDERRAL DKIYEKPKTR
LFSILPVEFN MHARRLFLDF NVFVMANRHK HGIMVGINPH SREWSDLAIS LASFSPYGFN
GDFANFDGMF HPSSFSMVSE LANIFYGNFL STERDNLTRM LTNRFSLMKG AILRVPGGGP
SGFPMTVIFN SFINLFYLQS AWIMLARFNG RQDISHPCNF PKYVRACVYG DDNIVAIKME
VLPWYNLQTV SEALFDYFGV TMTDGAKNKA SEAKPYGKIL EFDFLKRHFK ADELIPSLFH
APLHKRSIEE QVYWIREGGN SLELLEANIE NALYEAHHHG REYYEELKDQ IKKAMNRAGY
MSFVAPSYLM CRQRWLQQDL GEVATSSLPS HVGLLKEATK NHFSALTGQE EIKAIFEEID
NGNGGTTKHG NMQQILPNIF IGPTRIFETK YGNSLFNLVC DNSLSKGQTR YGVKHGIQSL
SKPDFTYISE SLPCLTTPNF RMVCLDPIGG ELALATALCL LHAAGIINTK TFTMFMRIHI
KQWKHVLQAY FRVCETFVSK EWQNFKRDIK RLSQDDVGCS RTTPVCGRFL TLDGQLPQHI
KSLDKIDFKK TRRIKIAQDE DFIIQID


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