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Polyprotein

 K7WPM0_9HEPC            Unreviewed;      3035 AA.
K7WPM0;
06-FEB-2013, integrated into UniProtKB/TrEMBL.
06-FEB-2013, sequence version 1.
25-APR-2018, entry version 38.
SubName: Full=Polyprotein {ECO:0000313|EMBL:AFX61599.1};
Recombinant Hepatitis C virus 3a-2a (SA1/JFH1).
Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage;
Flaviviridae; Hepacivirus.
NCBI_TaxID=1259832 {ECO:0000313|EMBL:AFX61599.1, ECO:0000313|Proteomes:UP000116957};
[1] {ECO:0000313|EMBL:AFX61599.1, ECO:0000313|Proteomes:UP000116957}
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=3a/2a {ECO:0000313|EMBL:AFX61599.1};
Kachko A., Wells F., Zubkova I., Kochneva G., Major M.;
"Recombinant intergenotypic 3a/2a (SA1/JFH1).";
Submitted (SEP-2012) to the EMBL/GenBank/DDBJ databases.
-!- 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: Virion {ECO:0000256|SAAS:SAAS00560857}.
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EMBL; JX826592; AFX61599.1; -; Other_RNA.
Proteomes; UP000116957; Genome.
GO; GO:0033644; C:host cell membrane; IEA:UniProtKB-KW.
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:0005524; F:ATP binding; IEA:UniProtKB-KW.
GO; GO:0008026; F:ATP-dependent helicase activity; IEA:InterPro.
GO; GO:0004197; F:cysteine-type endopeptidase activity; IEA:UniProtKB-UniRule.
GO; GO:0003723; F:RNA binding; 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:0008270; F:zinc ion binding; IEA:InterPro.
GO; GO:0039520; P:induction by virus of host autophagy; IEA:UniProtKB-KW.
GO; GO:0039503; P:suppression by virus of host innate immune response; IEA:UniProtKB-KW.
GO; GO:0019087; P:transformation of host cell by virus; IEA:InterPro.
GO; GO:0046718; P:viral entry into host cell; IEA:UniProtKB-KW.
GO; GO:0039694; P:viral RNA genome replication; IEA:InterPro.
GO; GO:0019062; P:virion attachment to host cell; IEA:UniProtKB-KW.
CDD; cd00079; HELICc; 1.
Gene3D; 2.20.25.210; -; 1.
Gene3D; 2.20.25.220; -; 1.
InterPro; IPR011492; DEAD_Flavivir.
InterPro; IPR002521; HCV_core_C.
InterPro; IPR002522; HCV_core_N.
InterPro; IPR002519; HCV_env.
InterPro; IPR002531; HCV_NS1.
InterPro; IPR002518; HCV_NS2.
InterPro; IPR000745; HCV_NS4a.
InterPro; IPR001490; HCV_NS4b.
InterPro; IPR002868; HCV_NS5a.
InterPro; IPR013193; HCV_NS5a_1B_dom.
InterPro; IPR038568; HCV_NS5A_1B_sf.
InterPro; IPR024350; HCV_NS5a_C.
InterPro; IPR014001; Helicase_ATP-bd.
InterPro; IPR001650; Helicase_C.
InterPro; IPR013192; NS5A_1a.
InterPro; IPR038170; NS5A_1a_sf.
InterPro; IPR027417; P-loop_NTPase.
InterPro; IPR009003; Peptidase_S1_PA.
InterPro; IPR004109; Peptidase_S29_NS3.
InterPro; IPR007094; RNA-dir_pol_PSvirus.
InterPro; IPR002166; RNA_pol_HCV.
Pfam; PF07652; Flavi_DEAD; 1.
Pfam; PF01543; HCV_capsid; 1.
Pfam; PF01542; HCV_core; 1.
Pfam; PF01539; HCV_env; 1.
Pfam; PF01560; HCV_NS1; 1.
Pfam; PF01538; HCV_NS2; 1.
Pfam; PF01006; HCV_NS4a; 1.
Pfam; PF01001; HCV_NS4b; 1.
Pfam; PF01506; HCV_NS5a; 1.
Pfam; PF08300; HCV_NS5a_1a; 1.
Pfam; PF08301; HCV_NS5a_1b; 1.
Pfam; PF12941; HCV_NS5a_C; 1.
Pfam; PF02907; Peptidase_S29; 1.
Pfam; PF00998; RdRP_3; 1.
ProDom; PD001388; HCV_env; 1.
SMART; SM00487; DEXDc; 1.
SUPFAM; SSF50494; SSF50494; 1.
SUPFAM; SSF52540; SSF52540; 2.
PROSITE; PS51693; HCV_NS2_PRO; 1.
PROSITE; PS51192; HELICASE_ATP_BIND_1; 1.
PROSITE; PS51194; HELICASE_CTER; 1.
PROSITE; PS51822; HV_PV_NS3_PRO; 1.
PROSITE; PS50507; RDRP_SSRNA_POS; 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};
Complete proteome {ECO:0000313|Proteomes:UP000116957};
Helicase {ECO:0000256|SAAS:SAAS00058020};
Host membrane {ECO:0000256|SAAS:SAAS00445977};
Host-virus interaction {ECO:0000256|SAAS:SAAS00445756,
ECO:0000256|SAAS:SAAS00445995, ECO:0000256|SAAS:SAAS00941647};
Hydrolase {ECO:0000256|PROSITE-ProRule:PRU01030,
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};
Nucleotide-binding {ECO:0000256|SAAS:SAAS00058020};
Nucleotidyltransferase {ECO:0000256|SAAS:SAAS00510600};
Protease {ECO:0000256|PROSITE-ProRule:PRU01030};
RNA-directed RNA polymerase {ECO:0000256|SAAS:SAAS00510600};
Thiol protease {ECO:0000256|PROSITE-ProRule:PRU01030};
Transferase {ECO:0000256|SAAS:SAAS00510600};
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 RNA replication {ECO:0000256|SAAS:SAAS00664279};
Virion {ECO:0000256|SAAS:SAAS00445995, ECO:0000256|SAAS:SAAS00969288};
Virus entry into host cell {ECO:0000256|SAAS:SAAS00445995}.
TRANSMEM 122 144 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 164 186 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 344 362 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 724 745 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 757 776 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 788 809 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 821 841 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 879 899 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1666 1689 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1830 1851 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1857 1876 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 1888 1908 Helical. {ECO:0000256|SAM:Phobius}.
TRANSMEM 3016 3034 Helical. {ECO:0000256|SAM:Phobius}.
DOMAIN 909 1032 Peptidase C18.
{ECO:0000259|PROSITE:PS51693}.
DOMAIN 1033 1214 Peptidase S29.
{ECO:0000259|PROSITE:PS51822}.
DOMAIN 1223 1375 Helicase ATP-binding.
{ECO:0000259|PROSITE:PS51192}.
DOMAIN 1367 1544 Helicase C-terminal.
{ECO:0000259|PROSITE:PS51194}.
DOMAIN 2658 2776 RdRp catalytic.
{ECO:0000259|PROSITE:PS50507}.
ACT_SITE 958 958 For protease NS2-3 activity; shared with
dimeric partner. {ECO:0000256|PROSITE-
ProRule:PRU01030}.
ACT_SITE 978 978 For protease NS2-3 activity; shared with
dimeric partner. {ECO:0000256|PROSITE-
ProRule:PRU01030}.
ACT_SITE 999 999 For protease NS2-3 activity; shared with
dimeric partner. {ECO:0000256|PROSITE-
ProRule:PRU01030}.
SITE 1032 1033 Cleavage; by protease NS2-3.
{ECO:0000256|PROSITE-ProRule:PRU01030}.
SEQUENCE 3035 AA; 328436 MW; 26689F3328E74A50 CRC64;
MSTLPKPQRK TKRNTIRRPQ DVKFPGGGQI VGGVYVLPRR GPRLGVRATR KTSERSQPRG
RRQPIPKARR SEGRSWAQPG YPWPLYGNEG CGWAGWLLSP RGSRPSWGPN DPRRRSRNLG
KVIDTLTCGF ADLMGYIPLV GAPVGGVARA LAHGVRALED GINFATGNLP GCSFSIFLLA
LFSCLIHPAA SLEWRNTSGL YVLTNDCSNS SIVYEADDVI LHAPGCVPCV QDGNTSTCWT
PVTPTVAVKY LGATTASIRS HVDLLVGAAT MCSALYVGDM CGAVFLVGQA FTFTPRRHQT
VQTCNCSLYP GHLTGHRMAW DMMMNWSPAV GMVVAHILRL PQTLFDIIAG AHWGILAGLA
YYSMQGNWAK VAIIMVMFSG VDATTHTIGG SAASSARGFV SLFSVGAQQK LQLVNTNGSW
HINSTALNCN ESINTGFIAG LFYYHKFNST GCPQRLSSCR PITFFKQGWG PLTDANITGP
SDDRPYCWHY APRLCETVPA SSVCGPVYCF TPSPVVVGTT NAKGAPTYNW GENETDVFLL
ESQRPPGGRW FGCVWMNSTG FTKTCGAAPC NIYGGDTDFN NESDLYCPTD CFRKHPEATY
SRCGAGPWLT PRCIVDYPYR LWHYPCTVNF TLFKVRMFVG GFEHRFAAAC NWTRGERCDI
EDRDRSEQHP LLHSTTGLAI LPCSFTPMPA LSTGLIHLHQ NIVDVQYLYG VGSGMVGWAL
KWEVVILVFL LLADARVCVA IWLMLMIPQA EAALENLVTL NAVAAAGTHG IGWYLVAFCA
AWHVRGKLVP LVTYSLTGLW SLALLVLLLP QRAYAWSGDD SATLGAGVLA LFGFFTLSPW
YKHWISRLIW WLCYLLTLGE AMIQEWVPPM QVRGGRDGIA WAVTIFCPGV VFDITKWLLA
LLGPAYLLRA ALTHVPYFVR AHALIRVCAL VKQLAGGRYV QVALLALGRW TGTYIYDHLT
PMSDWAASGL RDLAVAVEPI IFSPMEKKVI VWGAETAACG DILHGLPVSA RLGQEILLGP
ADGYTSKGWK LLAPITAYAQ QTRGLLGAIV VSMTGRDRTE QAGEVQILST VSQSFLGTTI
SGVLWTVYHG AGNKTLAGLR GPVTQMYSSA EGDLVGWPSP PGTKSLEPCK CGAVDLYLVT
RNADVIPARR RGDKRGALLS PRPISTLKGS SGGPVLCPRG HVVGLFRAAV CSRGVAKSID
FIPVETLDVV TRSPTFSDNS TPPAVPQTYQ VGYLHAPTGS GKSTKVPVAY AAQGYKVLVL
NPSVAATLGF GAYLSKAHGI NPNIRTGVRT VMTGEAITYS TYGKFLADGG CASGAYDIII
CDECHAVDAT SILGIGTVLD QAETAGVRLT VLATATPPGS VTTPHPDIEE VGLGREGEIP
FYGRAIPLSC IKGGRHLIFC HSKKKCDELA AALRGMGLNA VAYYRGLDVS IIPAQGDVVV
VATDALMTGY TGDFDSVIDC NVAVTQAVDF SLDPTFTITT QTVPQDAVSR SQRRGRTGRG
RQGTYRYVST GERASGMFDS VVLCECYDAG AAWYDLTPAE TTVRLRAYFN TPGLPVCQDH
LEFWEAVFTG LTHIDAHFLS QTKQAGENFA YLVAYQATVC ARAKAPPPSW DAMWKCLARL
KPTLAGPTPL LYRLGPITNE VTLTHPGTKY IATCMQADLE VMTSTWVLAG GVLAAVAAYC
LATGCVSIIG RLHVNQRVVV APDKEVLYEA FDEMEECASR AALIEEGQRI AEMLKSKIQG
LLQQASKQAQ DIQPAMQASW PKVEQFWARH MWNFISGIQY LAGLSTLPGN PAVASMMAFS
AALTSPLSTS TTILLNIMGG WLASQIAPPA GATGFVVSGL VGAAVGSIGL GKVLVDILAG
YGAGISGALV AFKIMSGEKP SMEDVINLLP GILSPGALVV GVICAAILRR HVGPGEGAVQ
WMNRLIAFAS RGNHVAPTHY VTESDASQRV TQLLGSLTIT SLLRRLHNWI TEDCPIPCSG
SWLRDVWDWV CTILTDFKNW LTSKLFPKLP GLPFISCQKG YKGVWAGTGI MTTRCPCGAN
ISGNVRLGSM RITGPKTCMN TWQGTFPINC YTEGQCAPKP PTNYKTAIWR VAASEYAEVT
QHGSYSYVTG LTTDNLKIPC QLPSPEFFSW VDGVQIHRFA PTPKPFFRDE VSFCVGLNSY
AVGSQLPCEP EPDADVLRSM LTDPPHITAE TAARRLARGS PPSEASSSVS QLSAPSLRAT
CTTHSNTYDV DMVDANLLME GGVAQTEPES RVPVLDFLEP MAEEESDLEP SIPSECMLPR
SGFPRALPAW ARPDYNPPLV ESWRRPDYQP PTVAGCALPP PKKAPTPPPR RRRTVGLSES
TISEALQQLA IKTFGQPPSS GDAGSSTGAG AAESGGPTSP GEPAPSETGS ASSMPPLEGE
PGDPDLESDQ VELQPPPQGG GVAPGSGSGS WSTCSEEDDT TVCCSMSYSW TGALITPCSP
EEEKLPINPL SNSLLRYHNK VYCTTSKSAS QRAKKVTFDR TQVLDAHYDS VLKDIKLAAS
KVSARLLTLE EACQLTPPHS ARSKYGFGAK EVRSLSGRAV NHIKSVWKDL LEDPQTPIPT
TIMAKNEVFC VDPAKGGKKP ARLIVYPDLG VRVCEKMALY DITQKLPQAV MGASYGFQYS
PAQRVEYLLK AWAEKKDPMG FSYDTRCFDS TVTERDIRTE ESIYQACSLP EEARTAIHSL
TERLYVGGPM FNSKGQTCGY RRCRASGVLT TSMGNTITCY VKALAACKAA GIVAPTMLVC
GDDLVVISES QGTEEDERNL RAFTEAMTRY SAPPGDPPRP EYDLELITSC SSNVSVALGP
RGRRRYYLTR DPTTPLARAA WETVRHSPIN SWLGNIIQYA PTIWVRMVLM THFFSILMVQ
DTLDQNLNFE MYGSVYSVNP LDLPAIIERL HGLDAFSMHT YSHHELTRVA SALRKLGAPP
LRVWKSRARA VRASLISRGG KAAVCGRYLF NWAVKTKLKL TPLPEARLLD LSSWFTVGAG
GGDIFHSVSR ARPRSLLFGL LLLFVGVGLF LLPAR


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