Protein: Genome polyprotein [Cleaved into: Peptide 2k; Capsid protein C (Core protein); Protein prM; Peptide pr; Small envelope protein M (Matrix protein); Envelope protein E; Non-structural protein 1 (NS1); Non-structural protein 2A (NS2A); Serine protease subunit NS2B (Flavivirin protease NS2B regulatory subunit) (Non-structural protein 2B); Serine protease/Helicase NS3 (EC 3.4.21.91) (EC 3.6.1.15) (EC 3.6.4.13) (Flavivirin protease NS3 catalytic subunit) (Non-structural protein 3); Non-structural protein 4A (NS4A); Non-structural protein 4B (NS4B); RNA-directed RNA polymerase NS5 (EC 2.1.1.56) (EC 2.1.1.57) (EC 2.7.7.48) (NS5)] (P06935)
Organism: West Nile virus (WNV)
Function: Plays a role in virus budding by binding to the cell membrane and gathering the viral RNA into a nucleocapsid that forms the core of a mature virus particle (By similarity). During virus entry, may induce genome penetration into the host cytoplasm after hemifusion induced by the surface proteins (By similarity). Can migrate to the cell nucleus where it modulates host functions (By similarity). Overcomes the anti-viral effects of host EXOC1 by sequestering and degrading the latter through the proteasome degradation pathway.
Subcellular location: [Capsid protein C]: Virion {ECO:0000250|UniProtKB:P17763}. Host nucleus {ECO:0000250|UniProtKB:P17763}. Host cytoplasm {ECO:0000269|PubMed:19889084}. Host cytoplasm, host perinuclear region {ECO:0000269|PubMed:19889084}.; SUBCELLULAR LOCATION: [Peptide pr]: Secreted {ECO:0000250|UniProtKB:P17763}.; SUBCELLULAR LOCATION: [Small envelope protein M]: Virion membrane {ECO:0000250|UniProtKB:P03314}; Multi-pass membrane protein {ECO:0000250|UniProtKB:P03314}. Host endoplasmic reticulum membrane {ECO:0000250|UniProtKB:P03314}; Multi-pass membrane protein {ECO:0000255}. Note=ER membrane retention is mediated by the transmembrane domains. {ECO:0000250|UniProtKB:P03314}.; SUBCELLULAR LOCATION: [Envelope protein E]: Virion membrane {ECO:0000305}; Multi-pass membrane protein {ECO:0000250|UniProtKB:P03314}. Host endoplasmic reticulum membrane {ECO:0000250|UniProtKB:P03314}; Multi-pass membrane protein {ECO:0000255}. Note=ER membrane retention is mediated by the transmembrane domains. {ECO:0000250|UniProtKB:P03314}.; SUBCELLULAR LOCATION: [Non-structural protein 1]: Secreted {ECO:0000250|UniProtKB:P17763}. Host endoplasmic reticulum membrane; Peripheral membrane protein; Lumenal side {ECO:0000250|UniProtKB:P17763}. Note=Located in RE-derived vesicles hosting the replication complex. {ECO:0000250|UniProtKB:Q9Q6P4}.; SUBCELLULAR LOCATION: [Non-structural protein 2A]: Host endoplasmic reticulum membrane {ECO:0000250|UniProtKB:P14335}; Multi-pass membrane protein {ECO:0000250|UniProtKB:P17763}.; SUBCELLULAR LOCATION: [Serine protease subunit NS2B]: Host endoplasmic reticulum membrane; Multi-pass membrane protein {ECO:0000250|UniProtKB:P17763}.; SUBCELLULAR LOCATION: [Serine protease/Helicase NS3]: Host endoplasmic reticulum membrane {ECO:0000255|PROSITE-ProRule:PRU00860}; Peripheral membrane protein {ECO:0000255|PROSITE-ProRule:PRU00860}; Cytoplasmic side {ECO:0000255|PROSITE-ProRule:PRU00860}. Note=Remains non-covalently associated to serine protease subunit NS2B. {ECO:0000255|PROSITE-ProRule:PRU00860}.; SUBCELLULAR LOCATION: [Non-structural protein 4A]: Host endoplasmic reticulum membrane {ECO:0000250|UniProtKB:P14335}; Multi-pass membrane protein {ECO:0000250|UniProtKB:P17763}. Note=Located in RE-associated vesicles hosting the replication complex. {ECO:0000250|UniProtKB:P17763}.; SUBCELLULAR LOCATION: [Non-structural protein 4B]: Host endoplasmic reticulum membrane {ECO:0000250|UniProtKB:P17763}; Multi-pass membrane protein {ECO:0000250|UniProtKB:P17763}. Note=Located in RE-derived vesicles hosting the replication complex. {ECO:0000250|UniProtKB:Q9Q6P4}.; SUBCELLULAR LOCATION: [RNA-directed RNA polymerase NS5]: Host endoplasmic reticulum membrane; Peripheral membrane protein; Cytoplasmic side. Host nucleus {ECO:0000269|PubMed:16699025}. Host cytoplasm {ECO:0000250|UniProtKB:P14335}. Note=Located in RE-associated vesicles hosting the replication complex. NS5 protein is mainly localized in the nucleus rather than in ER vesicles (By similarity). Shuttles between the cytoplasm and nucleus (By similarity). {ECO:0000250|UniProtKB:P14335, ECO:0000250|UniProtKB:P17763}.
Sequence: MSKKPGGPGKNRAVNMLKRGMPRGLSLIGLKRAMLSLIDGKGPIRFVLALLAFFRFTAIAPTRAVLDRWRGVNKQTAMKHLLSFKKELGTLTSAINRRSTKQKKRGGTAGFTILLGLIACAGAVTLSNFQGKVMMTVNATDVTDVITIPTAAGKNLCIVRAMDVGYLCEDTITYECPVLAAGNDPEDIDCWCTKSSVYVRYGRCTKTRHSRRSRRSLTVQTHGESTLANKKGAWLDSTKATRYLVKTESWILRNPGYALVAAVIGWMLGSNTMQRVVFAILLLLVAPAYSFNCLGMSNRDFLEGVSGATWVDLVLEGDSCVTIMSKDKPTIDVKMMNMEAANLADVRSYCYLASVSDLSTRAACPTMGEAHNEKRADPAFVCKQGVVDRGWGNGCGLFGKGSIDTCAKFACTTKATGWIIQKENIKYEVAIFVHGPTTVESHGKIGATQAGRFSITPSAPSYTLKLGEYGEVTVDCEPRSGIDTSAYYVMSVGEKSFLVHREWFMDLNLPWSSAGSTTWRNRETLMEFEEPHATKQSVVALGSQEGALHQALAGAIPVEFSSNTVKLTSGHLKCRVKMEKLQLKGTTYGVCSKAFKFARTPADTGHGTVVLELQYTGTDGPCKVPISSVASLNDLTPVGRLVTVNPFVSVATANSKVLIELEPPFGDSYIVVGRGEQQINHHWHKSGSSIGKAFTTTLRGAQRLAALGDTAWDFGSVGGVFTSVGKAIHQVFGGAFRSLFGGMSWITQGLLGALLLWMGINARDRSIAMTFLAVGGVLLFLSVNVHADTGCAIDIGRQELRCGSGVFIHNDVEAWMDRYKFYPETPQGLAKIIQKAHAEGVCGLRSVSRLEHQMWEAIKDELNTLLKENGVDLSVVVEKQNGMYKAAPKRLAATTEKLEMGWKAWGKSIIFAPELANNTFVIDGPETEECPTANRAWNSMEVEDFGFGLTSTRMFLRIRETNTTECDSKIIGTAVKNNMAVHSDLSYWIESGLNDTWKLERAVLGEVKSCTWPETHTLWGDGVLESDLIIPITLAGPRSNHNRRPGYKTQNQGPWDEGRVEIDFDYCPGTTVTISDSCEHRGPAARTTTESGKLITDWCCRSCTLPPLRFQTENGCWYGMEIRPTRHDEKTLVQSRVNAYNADMIDPFQLGLMVVFLATQEVLRKRWTAKISIPAIMLALLVLVFGGITYTDVLRYVILVGAAFAEANSGGDVVHLALMATFKIQPVFLVASFLKARWTNQESILLMLAAAFFQMAYYDAKNVLSWEVPDVLNSLSVAWMILRAISFTNTSNVVVPLLALLTPGLKCLNLDVYRILLLMVGVGSLIKEKRSSAAKKKGACLICLALASTGVFNPMILAAGLMACDPNRKRGWPATEVMTAVGLMFAIVGGLAELDIDSMAIPMTIAGLMFAAFVISGKSTDMWIERTADITWESDAEITGSSERVDVRLDDDGNFQLMNDPGAPWKIWMLRMACLAISAYTPWAILPSVIGFWITLQYTKRGGVLWDTPSPKEYKKGDTTTGVYRIMTRGLLGSYQAGAGVMVEGVFHTLWHTTKGAALMSGEGRLDPYWGSVKEDRLCYGGPWKLQHKWNGHDEVQMIVVEPGKNVKNVQTKPGVFKTPEGEIGAVTLDYPTGTSGSPIVDKNGDVIGLYGNGVIMPNGSYISAIVQGERMEEPAPAGFEPEMLRKKQITVLDLHPGAGKTRKILPQIIKEAINKRLRTAVLAPTRVVAAEMSEALRGLPIRYQTSAVHREHSGNEIVDVMCHATLTHRLMSPHRVPNYNLFIMDEAHFTDPASIAARGYIATKVELGEAAAIFMTATPPGTSDPFPESNAPISDMQTEIPDRAWNTGYEWITEYVGKTVWFVPSVKMGNEIALCLQRAGKKVIQLNRKSYETEYPKCKNDDWDFVITTDISEMGANFKASRVIDSRKSVKPTIIEEGDGRVILGEPSAITAASAAQRRGRIGRNPSQVGDEYCYGGHTNEDDSNFAHWTEARIMLDNINMPNGLVAQLYQPEREKVYTMDGEYRLRGEERKNFLEFLRTADLPVWLAYKVAAAGISYHDRKWCFDGPRTNTILEDNNEVEVITKLGERKILRPRWADARVYSDHQALKSFKDFASGKRSQIGLVEVLGRMPEHFMVKTWEALDTMYVVATAEKGGRAHRMALEELPDALQTIVLIALLSVMSLGVFFLLMQRKGIGKIGLGGVILGAATFFCWMAEVPGTKIAGMLLLSLLLMIVLIPEPEKQRSQTDNQLAVFLICVLTLVGAVAANEMGWLDKTKNDIGSLLGHRPEARETTLGVESFLLDLRPATAWSLYAVTTAVLTPLLKHLITSDYINTSLTSINVQASALFTLARGFPFVDVGVSALLLAVGCWGQVTLTVTVTAAALLFCHYAYMVPGWQAEAMRSAQRRTAAGIMKNVVVDGIVATDVPELERTTPVMQKKVGQIILILVSMAAVVVNPSVRTVREAGILTTAAAVTLWENGASSVWNATTAIGLCHIMRGGWLSCLSIMWTLIKNMEKPGLKRGGAKGRTLGEVWKERLNHMTKEEFTRYRKEAITEVDRSAAKHARREGNITGGHPVSRGTAKLRWLVERRFLEPVGKVVDLGCGRGGWCYYMATQKRVQEVKGYTKGGPGHEEPQLVQSYGWNIVTMKSGVDVFYRPSEASDTLLCDIGESSSSAEVEEHRTVRVLEMVEDWLHRGPKEFCIKVLCPYMPKVIEKMETLQRRYGGGLIRNPLSRNSTHEMYWVSHASGNIVHSVNMTSQVLLGRMEKKTWKGPQFEEDVNLGSGTRAVGKPLLNSDTSKIKNRIERLKKEYSSTWHQDANHPYRTWNYHGSYEVKPTGSASSLVNGVVRLLSKPWDTITNVTTMAMTDTTPFGQQRVFKEKVDTKAPEPPEGVKYVLNETTNWLWAFLARDKKPRMCSREEFIGKVNSNAALGAMFEEQNQWKNAREAVEDPKFWEMVDEEREAHLRGECNTCIYNMMGKREKKPGEFGKAKGSRAIWFMWLGARFLEFEALGFLNEDHWLGRKNSGGGVEGLGLQKLGYILKEVGTKPGGKVYADDTAGWDTRITKADLENEAKVLELLDGEHRRLARSIIELTYRHKVVKVMRPAADGKTVMDVISREDQRGSGQVVTYALNTFTNLAVQLVRMMEGEGVIGPDDVEKLGKGKGPKVRTWLFENGEERLSRMAVSGDDCVVKPLDDRFATSLHFLNAMSKVRKDIQEWKPSTGWYDWQQVPFCSNHFTELIMKDGRTLVVPCRGQDELIGRARISPGAGWNVRDTACLAKSYAQMWLLLYFHRRDLRLMANAICSAVPANWVPTGRTTWSIHAKGEWMTTEDMLAVWNRVWIEENEWMEDKTPVERWSDVPYSGKREDIWCGSLIGTRTRATWAENIHVAINQVRSVIGEEKYVDYMSSLRRYEDTIVVEDTVL
InterPro domains: - IPR001528: Flavivirus non-structural protein NS4B (domain) [2270-2516]
- IPR011998: Envelope glycoprotein E, central and dimerisation domain, flavivirus (domain) [293-585]
- IPR000208: RNA-directed RNA polymerase, fingers/palm subdomains, flavivirus (domain) [2779-3230]
- IPR009003: Peptidase S1, PA clan (homologous_superfamily) [1506-1671]
- IPR013756: Flaviviral glycoprotein E, central domain, subdomain 2 (homologous_superfamily) [342-561]
- IPR000752: Flavivirus non-structural protein NS2A (domain) [1151-1304]
- IPR001122: Capsid protein C, flavivirus (domain) [6-123]
- IPR001650: Helicase, C-terminal domain-like (domain) [1849-2014]
- IPR001157: Non-structural protein NS1, flavivirus (domain) [790-1139]
- IPR011492: Non-structural protein NS3-like, DEAD-box helicase, flavivirus (domain) [1686-1832]
- IPR000069: Envelope glycoprotein M, flavivirus (domain) [218-290]
- IPR013755: Flaviviral glycoprotein E, central domain, subdomain 1 (homologous_superfamily) [353-546]
- IPR014001: Helicase superfamily 1/2, ATP-binding domain (domain) [1668-1856]
- IPR007094: RNA-directed RNA polymerase, catalytic domain (domain) [3055-3207]
- IPR002535: Flavivirus polyprotein propeptide (domain) [133-214]
- IPR000487: Non-structural protein NS2B, flavivirus (domain) [1371-1502]
- IPR001850: Non-structural protein NS3, peptidase S7, flavivirus (domain) [1502-1679]
- IPR000404: Flavivirus non-structural protein NS4A (domain) [2126-2267]
- IPR002877: Ribosomal RNA methyltransferase, FtsJ domain (domain) [2580-2748]
- IPR000336: Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily (homologous_superfamily) [584-692]
Gene Ontology annotations:
Molecular Function (MF): GO:0003674 (molecular function), GO:0005488 (binding), GO:0003824 (catalytic activity), GO:0016740 (transferase activity), GO:0140640 (catalytic activity, acting on a nucleic acid), GO:0005515 (protein binding), GO:0140098 (catalytic activity, acting on RNA), GO:0016741 (transferase activity, transferring one-carbon groups), GO:0008173 (RNA methyltransferase activity), GO:0008168 (methyltransferase activity), GO:0008174 (mRNA methyltransferase activity), GO:0008171 (O-methyltransferase activity), GO:0008757 (S-adenosylmethionine-dependent methyltransferase activity), GO:0008170 (N-methyltransferase activity)
Biological Process (BP): GO:0008150 (biological process), GO:0008152 (metabolic process), GO:0050789 (regulation of biological process), GO:0044419 (biological process involved in interspecies interaction between organisms), GO:0065007 (biological regulation), GO:0050896 (response to stimulus), GO:0009987 (cellular process), GO:0048519 (negative regulation of biological process), GO:0016032 (viral process), GO:0009605 (response to external stimulus), GO:0023057 (negative regulation of signaling), GO:0009058 (biosynthetic process), GO:0044068 (modulation by symbiont of host cellular process), GO:0006807 (nitrogen compound metabolic process), GO:0019079 (viral genome replication), GO:0002682 (regulation of immune system process), GO:0035821 (modulation of process of another organism), GO:0071704 (organic substance metabolic process), GO:0044403 (biological process involved in symbiotic interaction), GO:0044237 (cellular metabolic process), GO:0019058 (viral life cycle), GO:0002683 (negative regulation of immune system process), GO:0009607 (response to biotic stimulus), GO:0050794 (regulation of cellular process), GO:0048583 (regulation of response to stimulus), GO:0023051 (regulation of signaling), GO:0019048 (modulation by virus of host process), GO:0048523 (negative regulation of cellular process), GO:0051707 (response to other organism), GO:0048585 (negative regulation of response to stimulus), GO:0044238 (primary metabolic process), GO:0044501 (modulation of signal transduction in another organism), GO:0060759 (regulation of response to cytokine stimulus), GO:0050777 (negative regulation of immune response), GO:0009968 (negative regulation of signal transduction), GO:0010648 (negative regulation of cell communication), GO:1901576 (organic substance biosynthetic process), GO:0043207 (response to external biotic stimulus), GO:0052173 (response to defenses of other organism), GO:0046483 (heterocycle metabolic process), GO:0080134 (regulation of response to stress), GO:0009966 (regulation of signal transduction), GO:0075136 (response to host), GO:0032101 (regulation of response to external stimulus), GO:0044249 (cellular biosynthetic process), GO:0006725 (cellular aromatic compound metabolic process), GO:0034641 (cellular nitrogen compound metabolic process), GO:0060761 (negative regulation of response to cytokine stimulus), GO:0043170 (macromolecule metabolic process), GO:0031348 (negative regulation of defense response), GO:0052027 (modulation by symbiont of host signal transduction pathway), GO:0051701 (biological process involved in interaction with host), GO:0075528 (modulation by virus of host immune response), GO:0002831 (regulation of response to biotic stimulus), GO:1901360 (organic cyclic compound metabolic process), GO:0050776 (regulation of immune response), GO:0006139 (nucleobase-containing compound metabolic process), GO:0010646 (regulation of cell communication), GO:0044003 (modulation by symbiont of host process), GO:0039694 (viral RNA genome replication), GO:0039503 (suppression by virus of host innate immune response), GO:0002832 (negative regulation of response to biotic stimulus), GO:0019054 (modulation by virus of host cellular process), GO:0032102 (negative regulation of response to external stimulus), GO:0031347 (regulation of defense response), GO:0009059 (macromolecule biosynthetic process), GO:0052200 (response to host defenses), GO:1901362 (organic cyclic compound biosynthetic process), GO:0045088 (regulation of innate immune response), GO:0001959 (regulation of cytokine-mediated signaling pathway), GO:0019438 (aromatic compound biosynthetic process), GO:0052029 (suppression by symbiont of host signal transduction pathway), GO:0045824 (negative regulation of innate immune response), GO:0052031 (modulation by symbiont of host defense response), GO:0034654 (nucleobase-containing compound biosynthetic process), GO:0044414 (suppression of host defenses by symbiont), GO:0090304 (nucleic acid metabolic process), GO:0018130 (heterocycle biosynthetic process), GO:0044271 (cellular nitrogen compound biosynthetic process), GO:0001960 (negative regulation of cytokine-mediated signaling pathway), GO:0019049 (mitigation of host antiviral defense response), GO:0016070 (RNA metabolic process), GO:0052170 (suppression by symbiont of host innate immune response), GO:0052572 (response to host immune response), GO:0030682 (mitigation of host defenses by symbiont), GO:0060339 (negative regulation of type I interferon-mediated signaling pathway), GO:0060338 (regulation of type I interferon-mediated signaling pathway), GO:0032774 (RNA biosynthetic process), GO:0052553 (modulation by symbiont of host immune response), GO:0052167 (modulation by symbiont of host innate immune response), GO:0052562 (suppression by symbiont of host immune response)
Cellular Component (CC): GO:0005575 (cellular component), GO:0044423 (virion component)