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Genome polyprotein

 G4XII4_9FLAV            Unreviewed;      3414 AA.
G4XII4;
14-DEC-2011, integrated into UniProtKB/TrEMBL.
14-DEC-2011, sequence version 1.
12-SEP-2018, entry version 57.
RecName: Full=Genome polyprotein {ECO:0000256|SAAS:SAAS00368684};
Tick-borne encephalitis virus.
Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage;
Flaviviridae; Flavivirus.
NCBI_TaxID=11084 {ECO:0000313|EMBL:AEP25267.2, ECO:0000313|Proteomes:UP000123285};
[1] {ECO:0000313|EMBL:AEP25267.2, ECO:0000313|Proteomes:UP000123285}
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=SofjinKSY {ECO:0000313|EMBL:AEP25267.2};
PubMed=22095094; DOI=10.1007/s11262-011-0690-9;
Kovalev S.Y., Mukhacheva T.A., Kokorev V.S., Belyaeva I.V.;
"Tick-borne encephalitis virus: reference strain Sofjin and problem of
its authenticity.";
Virus Genes 44:217-224(2012).
-!- CATALYTIC ACTIVITY: ATP + H(2)O = ADP + phosphate.
{ECO:0000256|SAAS:SAAS00368577}.
-!- CATALYTIC ACTIVITY: NTP + H(2)O = NDP + phosphate.
{ECO:0000256|SAAS:SAAS00368620}.
-!- CATALYTIC ACTIVITY: Nucleoside triphosphate + RNA(n) = diphosphate
+ RNA(n+1). {ECO:0000256|SAAS:SAAS00383097}.
-!- SUBCELLULAR LOCATION: Host cytoplasm
{ECO:0000256|SAAS:SAAS00937464}. Host endoplasmic reticulum
{ECO:0000256|SAAS:SAAS00941764}. Virion membrane
{ECO:0000256|SAAS:SAAS00980400}; Multi-pass membrane protein
{ECO:0000256|SAAS:SAAS00980400}.
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EMBL; JF819648; AEP25267.2; -; Genomic_RNA.
Proteomes; UP000123285; Genome.
GO; GO:0005576; C:extracellular region; IEA:UniProtKB-SubCell.
GO; GO:0044167; C:host cell endoplasmic reticulum membrane; IEA:UniProtKB-SubCell.
GO; GO:0042025; C:host cell nucleus; 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:0019031; C:viral envelope; IEA:InterPro.
GO; GO:0055036; C:virion membrane; IEA:UniProtKB-SubCell.
GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
GO; GO:0008026; F:ATP-dependent helicase activity; IEA:InterPro.
GO; GO:0003725; F:double-stranded RNA binding; IEA:InterPro.
GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
GO; GO:0004482; F:mRNA (guanine-N7-)-methyltransferase activity; IEA:InterPro.
GO; GO:0004483; F:mRNA (nucleoside-2'-O-)-methyltransferase activity; IEA:InterPro.
GO; GO:0046983; F:protein dimerization activity; 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:0004252; F:serine-type endopeptidase activity; IEA:InterPro.
GO; GO:0005198; F:structural molecule activity; IEA:InterPro.
GO; GO:0039654; P:fusion of virus membrane with host endosome membrane; IEA:UniProtKB-KW.
GO; GO:0039520; P:induction by virus of host autophagy; IEA:UniProtKB-KW.
GO; GO:0039564; P:suppression by virus of host STAT2 activity; IEA:UniProtKB-KW.
GO; GO:0039502; P:suppression by virus of host type I interferon-mediated signaling pathway; IEA:UniProtKB-KW.
GO; GO:0019079; P:viral genome replication; IDA:CACAO.
GO; GO:0039694; P:viral RNA genome replication; IEA:InterPro.
GO; GO:0019062; P:virion attachment to host cell; IEA:UniProtKB-KW.
CDD; cd12149; Flavi_E_C; 1.
CDD; cd00079; HELICc; 1.
Gene3D; 1.10.8.970; -; 1.
Gene3D; 1.20.1280.260; -; 1.
Gene3D; 2.60.260.50; -; 1.
Gene3D; 2.60.40.350; -; 1.
Gene3D; 2.60.98.10; -; 3.
Gene3D; 3.30.387.10; -; 2.
Gene3D; 3.30.67.10; -; 4.
InterPro; IPR011492; DEAD_Flavivir.
InterPro; IPR000069; Env_glycoprot_M_flavivir.
InterPro; IPR038302; Env_glycoprot_M_sf_flavivir.
InterPro; IPR013755; Flav_gly_cen_dom_subdom1.
InterPro; IPR001122; Flavi_capsidC.
InterPro; IPR027287; Flavi_E_Ig-like.
InterPro; IPR026470; Flavi_E_Stem/Anchor_dom.
InterPro; IPR038345; Flavi_E_Stem/Anchor_dom_sf.
InterPro; IPR001157; Flavi_NS1.
InterPro; IPR000752; Flavi_NS2A.
InterPro; IPR000487; Flavi_NS2B.
InterPro; IPR000404; Flavi_NS4A.
InterPro; IPR001528; Flavi_NS4B.
InterPro; IPR002535; Flavi_propep.
InterPro; IPR038688; Flavi_propep_sf.
InterPro; IPR000336; Flavivir/Alphavir_Ig-like_sf.
InterPro; IPR001850; Flavivirus_NS3_S7.
InterPro; IPR014412; Gen_Poly_FLV.
InterPro; IPR011998; Glycoprot_cen/dimer.
InterPro; IPR036253; Glycoprot_cen/dimer_sf.
InterPro; IPR038055; Glycoprot_E_dimer_dom.
InterPro; IPR013756; GlyE_cen_dom_subdom2.
InterPro; IPR014001; Helicase_ATP-bd.
InterPro; IPR001650; Helicase_C.
InterPro; IPR014756; Ig_E-set.
InterPro; IPR026490; mRNA_cap_0/1_MeTrfase.
InterPro; IPR027417; P-loop_NTPase.
InterPro; IPR009003; Peptidase_S1_PA.
InterPro; IPR000208; RNA-dir_pol_flavivirus.
InterPro; IPR007094; RNA-dir_pol_PSvirus.
InterPro; IPR002877; rRNA_MeTrfase_FtsJ_dom.
InterPro; IPR029063; SAM-dependent_MTases.
Pfam; PF01003; Flavi_capsid; 1.
Pfam; PF07652; Flavi_DEAD; 1.
Pfam; PF02832; Flavi_glycop_C; 1.
Pfam; PF00869; Flavi_glycoprot; 1.
Pfam; PF01004; Flavi_M; 1.
Pfam; PF00948; Flavi_NS1; 1.
Pfam; PF01005; Flavi_NS2A; 1.
Pfam; PF01350; Flavi_NS4A; 1.
Pfam; PF01349; Flavi_NS4B; 1.
Pfam; PF00972; Flavi_NS5; 1.
Pfam; PF01570; Flavi_propep; 1.
Pfam; PF01728; FtsJ; 1.
Pfam; PF00949; Peptidase_S7; 1.
PIRSF; PIRSF003817; Gen_Poly_FLV; 1.
SMART; SM00487; DEXDc; 1.
SMART; SM00490; HELICc; 1.
SUPFAM; SSF50494; SSF50494; 1.
SUPFAM; SSF52540; SSF52540; 2.
SUPFAM; SSF53335; SSF53335; 1.
SUPFAM; SSF56983; SSF56983; 1.
SUPFAM; SSF81296; SSF81296; 1.
TIGRFAMs; TIGR04240; flavi_E_stem; 1.
PROSITE; PS51527; FLAVIVIRUS_NS2B; 1.
PROSITE; PS51528; FLAVIVIRUS_NS3PRO; 1.
PROSITE; PS51192; HELICASE_ATP_BIND_1; 1.
PROSITE; PS51194; HELICASE_CTER; 1.
PROSITE; PS50507; RDRP_SSRNA_POS; 1.
PROSITE; PS51591; RNA_CAP01_NS5_MT; 1.
4: Predicted;
Activation of host autophagy by virus {ECO:0000256|SAAS:SAAS00445756};
ATP-binding {ECO:0000256|SAAS:SAAS00058020};
Capsid protein {ECO:0000256|SAAS:SAAS00969288};
Coiled coil {ECO:0000256|SAM:Coils};
Complete proteome {ECO:0000313|Proteomes:UP000123285};
Disulfide bond {ECO:0000256|PIRSR:PIRSR003817-3,
ECO:0000256|SAAS:SAAS00139753};
Fusion of virus membrane with host endosomal membrane
{ECO:0000256|SAAS:SAAS00489633};
Fusion of virus membrane with host membrane
{ECO:0000256|SAAS:SAAS00489633};
Helicase {ECO:0000256|SAAS:SAAS00058020};
Host cytoplasm {ECO:0000256|SAAS:SAAS00936979};
Host membrane {ECO:0000256|SAAS:SAAS00445977};
Host-virus interaction {ECO:0000256|SAAS:SAAS00445756,
ECO:0000256|SAAS:SAAS00445995, ECO:0000256|SAAS:SAAS00941647};
Hydrolase {ECO:0000256|SAAS:SAAS00058020};
Inhibition of host innate immune response by virus
{ECO:0000256|SAAS:SAAS00941647};
Membrane {ECO:0000256|SAAS:SAAS00445939,
ECO:0000256|SAAS:SAAS00445977, ECO:0000256|SAM:Phobius};
Metal-binding {ECO:0000256|PIRSR:PIRSR003817-4,
ECO:0000256|SAAS:SAAS00940329};
Methyltransferase {ECO:0000256|SAAS:SAAS00817755};
Nucleotide-binding {ECO:0000256|SAAS:SAAS00058020};
Nucleotidyltransferase {ECO:0000256|SAAS:SAAS00510600};
RNA-binding {ECO:0000256|SAAS:SAAS00076745};
RNA-directed RNA polymerase {ECO:0000256|SAAS:SAAS00510600};
Transferase {ECO:0000256|SAAS:SAAS00510600,
ECO:0000256|SAAS:SAAS00817755};
Transmembrane {ECO:0000256|SAAS:SAAS00445939,
ECO:0000256|SAM:Phobius};
Transmembrane helix {ECO:0000256|SAAS:SAAS00445939,
ECO:0000256|SAM:Phobius};
Viral attachment to host cell {ECO:0000256|SAAS:SAAS00445995};
Viral immunoevasion {ECO:0000256|SAAS:SAAS00941647};
Viral penetration into host cytoplasm {ECO:0000256|SAAS:SAAS00489633};
Viral RNA replication {ECO:0000256|SAAS:SAAS00664279};
Virion {ECO:0000256|SAAS:SAAS00445995, ECO:0000256|SAAS:SAAS00969288};
Virus entry into host cell {ECO:0000256|SAAS:SAAS00445995,
ECO:0000256|SAAS:SAAS00489633};
Zinc {ECO:0000256|PIRSR:PIRSR003817-4}.
TRANSMEM 33 50 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 101 119 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 246 279 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 728 749 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 756 776 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1133 1153 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1165 1183 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1203 1225 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1237 1257 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1296 1314 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1326 1348 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1385 1403 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1453 1480 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 2160 2184 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 2196 2222 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 2243 2259 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 2297 2315 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 2346 2363 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 2369 2387 Helical. {ECO:0000256|SAM:Phobius}.
DOMAIN 1357 1488 FLAVIVIRUS_NS2B.
{ECO:0000259|PROSITE:PS51527}.
DOMAIN 1490 1669 Peptidase S7.
{ECO:0000259|PROSITE:PS51528}.
DOMAIN 1675 1831 Helicase ATP-binding.
{ECO:0000259|PROSITE:PS51192}.
DOMAIN 1841 2000 Helicase C-terminal.
{ECO:0000259|PROSITE:PS51194}.
DOMAIN 2512 2776 MRNA cap 0-1 NS5-type MT.
{ECO:0000259|PROSITE:PS51591}.
DOMAIN 3040 3189 RdRp catalytic.
{ECO:0000259|PROSITE:PS50507}.
COILED 2779 2799 {ECO:0000256|SAM:Coils}.
ACT_SITE 1543 1543 Charge relay system; for serine protease
NS3 activity.
{ECO:0000256|PIRSR:PIRSR003817-1}.
ACT_SITE 1567 1567 Charge relay system; for serine protease
NS3 activity.
{ECO:0000256|PIRSR:PIRSR003817-1}.
ACT_SITE 1627 1627 Charge relay system; for serine protease
NS3 activity.
{ECO:0000256|PIRSR:PIRSR003817-1}.
METAL 2950 2950 Zinc 1. {ECO:0000256|PIRSR:PIRSR003817-
4}.
METAL 2954 2954 Zinc 1; via tele nitrogen.
{ECO:0000256|PIRSR:PIRSR003817-4}.
METAL 2959 2959 Zinc 1. {ECO:0000256|PIRSR:PIRSR003817-
4}.
METAL 2962 2962 Zinc 1. {ECO:0000256|PIRSR:PIRSR003817-
4}.
METAL 3224 3224 Zinc 2; via tele nitrogen.
{ECO:0000256|PIRSR:PIRSR003817-4}.
METAL 3240 3240 Zinc 2. {ECO:0000256|PIRSR:PIRSR003817-
4}.
METAL 3359 3359 Zinc 2. {ECO:0000256|PIRSR:PIRSR003817-
4}.
DISULFID 283 310 {ECO:0000256|PIRSR:PIRSR003817-3}.
DISULFID 340 396 {ECO:0000256|PIRSR:PIRSR003817-3}.
DISULFID 354 385 {ECO:0000256|PIRSR:PIRSR003817-3}.
DISULFID 372 401 {ECO:0000256|PIRSR:PIRSR003817-3}.
DISULFID 466 570 {ECO:0000256|PIRSR:PIRSR003817-3}.
DISULFID 587 618 {ECO:0000256|PIRSR:PIRSR003817-3}.
SEQUENCE 3414 AA; 378008 MW; F1C764D0944B0672 CRC64;
MAGKAILKGK GGGPPRRVSK ETAKKTRQSR VQMPNGLVLM RMMGILWHAI AGTARSPVLK
AFWKSVPLKQ ATAALRKIKK AVSTLMVGLQ RRGKRRAAVD WTGWLLVVVL LGVTLAATVR
KERDGTTVIR AEGKDAATQV RVENGTCVIL ATDMGSWCDD SLTYECVTID QGEEPADVDC
FCRNVDGVYL EYGRCGKQEG SRTRRSVLIP SHAQGDLTGR GHKWLEGDSL RTHLTRVEGW
VWKNKMLTLA AIAVVWLAVE SVVTRVAVVV VLLCLAPVYA SRCTHLENRD FVTGTQGTTR
VTLVLELGGC VTITAEGKPS MDVWLDSIYQ ENPAKTREYC LHAKLSNTKV AARCPTMGPA
TLAEEHQSGT VCKRDQSDRG WGNHCGLFGK GSIVTCVKAS CEAKKKATGH VYDANKIVYT
VKVEPHTGDY VAVNETHSGR KTASFTVSSE KTILTMGDYG DVSLLCRVAS GVDLAQTVIL
ELDKTSEHLP TAWQVHRDWF NDLALPWKHE GAQNWNNAER LVEFGAPHAV KMDVYNLGDH
TGVLLKSLAG VPVAHIDGTK YHLKSGHVTC EVGLEKLKMK GLTYTMCDKT KFTWKRIPTD
SGHDTVVMEV AFSGTKPCRI PVRAVAHGSP DVNVAMLITP NPIIENNGGG FIEMQLPPGD
NIIYVGELSH QWFQKGSSIG RVFQKTRKGI ERLTVIGEHA WDFGSTGGFL TSVGKALHTV
LGGAFNSLFG GVGFLPKILV GVVLAWLGLN MRNPTMSMSF LLAGGLVLAM TLGVGADVGC
AVDTERMELR CGEGLVVWRE VSEWYDNYAY YPETPGALAS AIKETFEEGT CGIVPQNRLE
MAMWRSSATE LNLALAEGDA NLTVVVDKLD PTDYRGGIPG LLKKGKDIKV SWKSWGHSMI
WSIPEAPRRF MVGTEGSSEC PLERRKTGVF TVAEFGVGLR TKVFLDFRQE STHECDTGVM
GAAVKNGMAV HTDQSLWMKS VRNDTGTYIV ELLVTDLRNC SWPASHTIDN AEVVDSELFL
PASLAGPRSW YNRIPGYSEQ VKGPWKYSPI RVTREECPGT RVTINADCDK RGASVRSTTE
SGKVIPEWCC RTCTLPPVTF RTGTDCWYAM EIRPVHDQGG LVRSMVVADN GELLSEGGIP
GIVALFVVLE YAIRRRPATG TTAMWGGIVV LALLVTGLVK IESLVRYVVA VGITFHLELG
PEIVALTLLQ AVFELRVGLL SAFALRSNLT VREMVTIYFL LLVLELGLPS EGLGALWKWG
DALAMGALIF RACTAEEKTG VGLLLMALMT QQDLAIVQYG LMLFLGVASC CSIWKLIRGH
REQKGLTWIV PLAGLLGGEG SGVRLLAFWE LAIHGRRRSF SEPLTVVGVM LTLASGMMRH
TSQEALCALA VASFLLLMLV LGTRKMQLVA EWSGCVEWHP ELMNEGGEVS LRVRQDSMGN
FHLTELEKEE RVMAFWLLAG LAASAFHWSG ILGVMGLWTL SEMLRTARRS DLVFSGQGGR
ERGDRPFEVK DGVYRIFSPG LLWGQRQVGV GYGSKGVLHT MWHVTRGAAL YIDDAVAGPY
WADVKEDVVC YGGAWSLEEK WKGETVQVHA FPPGRAHEVH QCQPGELLLD TGRRIGAVPI
DLAKGTSGSP ILNSQGVVVG LYGNGLKTNE TYVSSIAQGE AEKSRPNLPP AVIGTGWTAK
GQITVLDMHP GSGKTHRVLP ELIRQCIDRR LRTLVLAPTR VVLKEMERAL NGKRVRFHSP
AVGDQQVGGS IVDVMCHATY VNRRLLPQGR QNWEVAIMDE AHWTDPHSIA ARGHLYTLAK
ENKCALVLMT ATPPGKSEPF PESNGAISSE EKQIPDGEWR DGFDWITEYE GRTAWFVPSI
AKGGIIARTL RQKGKSVICL NSKTFEKDYS RVRDEKPDFV VTTDISEMGA NLDVSRVIDG
RTNIKPEEVD GRVELTGTRR VTTASAAQRR GRVGRQEGRT DEYIYSGQCD DDDSGLVQWK
EAQILLDNTT TLRGPVATFY GPEQDKMPEV AGHFRLTEEK RKHFRHLLTH CDFTPWLAWH
VAANVSSVTS RSWTWEGPEE NTVDEANGDL VTFRSPNGAE RTLRPVWRDA RMFREGRDIR
EFVAYASGRR SFGDVLSGMS GVPELLRHRC VSAMDVFYTL MHEQPGSRAM KMAERDAPEA
FLTVVEMMVL GLATLGVVWC FVVRTSISRM TLGTLVLLAS LALLWAGGVS YGNMAGVALI
FYTLLTVLQP EAGKQRSSDD NKLAYFLLTL CSLAGLVAAN EMGFLEKTKA DLSTVLWSEH
EELRSWEEWT NIDIQPARSW GTYVLVVSLF TPYIIHQLQT KIQQLVNSAV ATGAQAMRDL
GGGSPFFGVA GHVMALGVVS LVGATPTSLV VGVGLAAFHL AIVVSGLEAE LTQRAHKVFF
SAMVRNPMVD GDVINPFGEG EAKPALYERK MSLVLAIVLC LMSVVMNRTV PSITEASAVG
LAAAGQLLRP EADTLWTMPV ACGLSGVVRG SLWGFLPLGH RLWLRASGSR RGGSEGDTLG
DLWKRKLNGC TKEEFFAYRR TGILETERDK ARELLRRGET NMGLAVSRGT AKLAWLEERG
YATLKGEVVD LGCGRGGWSY YAASRPAVMS VKAYTIGGKG HETPKMVTSL GWNLIKFRAG
MDVFSMQPHR ADTIMCDIGE SNPDAMVEGE RTRKVILLME QWKNRNPTAT CVFKVLAPYR
PEVIEALHRF QLQWGGGLVR TPFSRNSTHE MYYSTAVTGN IVNSVNIQSR KLLARFGDQR
GPTRVPELDL GVGTRCVVLA EDKVKEKDVQ ERISALREQY GETWHMDREH PYRTWQYWGS
YRTAPTGSAA SLINGVVKLL SWPWNAREDV VRMAMTDTTA FGQQRVFKEK VDTKAQEPQP
GTKVIMRAVN DWILERLARK SKPRMCSREE FIAKVKSNAA LGAWSDEQNR WSSAKEAVED
PAFWQLVDEE RERHLAGRCA HCVYNMMGKR EKKLGEFGVA KGSRAIWYMW LGSRFLEFEA
LGFLNEDHWA SRGSSGSGVE GISLNYLGWH LKGLSTLEGG LFYADDTAGW DTKVTNADLE
DEEQLLRYME GEHKQLAATI MQKAYHAKVV KVARPSRDGG CIMDVITRRD QRGSGQVVTY
ALNTLTNIKV QLIRMMEGEG VIEASDAHNP RLLRVERWLR DHGEERLGRM LVSGDDCVVR
PVDDRFSGAL YFLNDMAKTR KDIGEWEHSV GFSNWEEVPF CSHHFHELVM KDGRALIVPC
RDQDELVGRA RVSPGCGWSV RETACLSKAY GQMWLLSYFH RRDLRTLGLA ICSAVPVDWV
PTGRTTWSIH ASGAWMTTED MLDVWNRVWI LDNPFMHSKE KIAEWRDVPY LPKSHDMLCS
SLVGRKERAE WAKNIWGSVE KVRKMIGQEK FKDYLSCMDR HDLHWELKLE SSII


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