Protein: RNA1 polyprotein (B RNA polyprotein) (Bottom component polyprotein) (Genome polyprotein B) (P1) [Cleaved into: Protease cofactor (32 kDa protein); Putative helicase (EC 3.6.4.-) (58 kDa protein) (Membrane-binding protein) (NTP-binding protein) (NTB); Viral genome-linked protein (VPg); Picornain 3C-like protease (3C-like protease) (EC 3.4.22.-) (24 kDa protein); RNA-directed RNA polymerase (EC 2.7.7.48) (87 kDa protein)] (P03600)
Organism: Cowpea mosaic virus (strain SB) (CPMV)
Function: Thiol protease that cleaves the RNA1 and RNA2 polyproteins.
Subcellular location: [Putative helicase]: Host membrane {ECO:0000305}; Single-pass membrane protein {ECO:0000305}. Host cytoplasm, host perinuclear region {ECO:0000269|PubMed:12021362}.; SUBCELLULAR LOCATION: [RNA-directed RNA polymerase]: Host endoplasmic reticulum {ECO:0000269|PubMed:10864669}.; SUBCELLULAR LOCATION: [Protease cofactor]: Host cytoplasm, host perinuclear region {ECO:0000269|PubMed:12021362}.
Sequence: MGLPEYEADSEALLSQLTIEFTPGMTVSSLLAQVTTNDFHSAIEFFAAEKAVDIEGVHYNAYMQQIRKNPSLLRISVVAYAFHVSDMVAETMSYDVYEFLYKHYALFISNLVTRTLRFKELLLFCKQQFLEKMQASIVWAPELEQYLQVEGDAVAQGVSQLLYKMVTWVPTFVRGAVDWSVDAILVSFRKHFEKMVQEYVPMAHRVCSWLSQLWDKIVQWISQASETMGWFLDGCRDLMTWGIATLATCSALSLVEKLLVAMGFLVEPFGLSGIFLRTGVVAAACYNYGTNSKGFAEMMALLSLAANCVSTVIVGGFFPGEKDNAQSSPVILLEGLAGQMQNFCETTLVSVGKTCTAVNAISTCCGNLKALAGRILGMLRDFIWKTLGFETRFLADASLLFGEDVDGWLKAISDLRDQFIAKSYCSQDEMMQILVLLEKGRQMRKSGLSKGGISPAIINLILKGINDLEQLNRSCSVQGVRGVRKMPFTIFFQGKSRTGKSLLMSQVTKDFQDHYGLGGETVYSRNPCDQYWSGYRRQPFVLMDDFAAVVTEPSAEAQMINLISSAPYPLNMAGLEEKGICFDSQFVFVSTNFLEVSPEAKVRDDEAFKNRRHVIVQVSNDPAKAYDAANFASNQIYTILAWKDGRYNTVCVIEDYDELVAYLLTRSQQHAEEQEKNLANMMKSATFESHFKSLVEVLELGSMISAGFDIIRPEKLPSEAKEKRVLYSIPYNGEYCNALIDDNYNVTCWFGECVGNPEQLSKYSEKMLLGAYEFLLCSESLNVVIQAHLKEMVCPHHYDKELNFIGKIGETYYHNQMVSNIGSMQKWHRAILFGIGVLLGKEKEKTWYQVQVANVKQALYDMYTKEIRDWPMPIKVTCGIVLAAIGGSAFWKVFQQLVGSGNGPVLMGVAAGAFSAEPQSRKPNRFDMQQYRYNNVPLKRRVWADAQMSLDQSSVAIMSKCRANLVFGGTNLQIVMVPGRRFLACKHFFTHIKTKLRVEIVMDGRRYYHQFDPANIYDIPDSELVLYSHPSLEDVSHSCWDLFCWDPDKELPSVFGADFLSCKYNKFGGFYEAQYADIKVRTKKECLTIQSGNYVNKVSRYLEYEAPTIPEDCGSLVIAHIGGKHKIVGVHVAGIQGKIGCASLLPPLEPIAQAQGAEEYFDFLPAEENVSSGVAMVAGLKQGVYIPLPTKTALVETPSEWHLDTPCDKVPSILVPTDPRIPAQHEGYDPAKSGVSKYSQPMSALDPELLGEVANDVLELWHDCAVDWDDFGEVSLEEALNGCEGVEYMERIPLATSEGFPHILSRNGKEKGKRRFVQGDDCVVSLIPGTTVAKAYEELEASAHRFVPALVGIECPKDEKLPMRKVFDKPKTRCFTILPMEYNLVVRRKFLNFVRFIMANRHRLSCQVGINPYSMEWSRLAARMKEKGNDVLCCDYSSFDGLLSKQVMDVIASMINELCGGEDQLKNARRNLLMACCSRLAICKNTVWRVECGIPSGFPMTVIVNSIFNEILIRYHYKKLMREQQAPELMVQSFDKLIGLVTYGDDNLISVNAVVTPYFDGKKLKQSLAQGGVTITDGKDKTSLELPFRRLEECDFLKRTFVQRSSTIWDAPEDKASLWSQLHYVNCNNCEKEVAYLTNVVNVLRELYMHSPREATEFRRKVLKKVSWITSGDLPTLAQLQEFYEYQRQQGGADNNDTCDLLTSVDLLGPPLSFEKEAMHGCKVSEEIVTKNLAYYDFKRKGEDEVVFLFNTLYPQSSLPDGCHSVTWSQGSGRGGLPTQSWMSYNISRKDSNINKIIRTAVSSKKRVIFCARDNMVPVNIVALLCAVRNKLMPTAVSNATLVKVMENAKAFKFLPEEFNFAFSDV
InterPro domains: - IPR004004: Helicase/polymerase/peptidase polyprotein, Calicivirus-type (family) [484-1553]
- IPR043504: Peptidase S1, PA clan, chymotrypsin-like fold (homologous_superfamily) [1068-1152]
- IPR001205: RNA-directed RNA polymerase, C-terminal domain (domain) [1198-1669]
- IPR043502: DNA/RNA polymerase superfamily (homologous_superfamily) [1178-1670]
- IPR014759: Helicase, superfamily 3, single-stranded RNA virus (domain) [462-633]
- IPR043128: Reverse transcriptase/Diguanylate cyclase domain (homologous_superfamily) [1466-1598]
- IPR000199: Peptidase C3A/C3B, picornaviral (domain) [1096-1134]
- IPR044067: Picornavirales 3C/3C-like protease domain (domain) [945-1150]
- IPR000605: Helicase, superfamily 3, single-stranded DNA/RNA virus (domain) [490-593]
- IPR009003: Peptidase S1, PA clan (homologous_superfamily) [939-1156]
- IPR007094: RNA-directed RNA polymerase, catalytic domain (domain) [1429-1559]
Gene Ontology annotations:
Molecular Function (MF): GO:0003674 (molecular function), GO:0005488 (binding), GO:0005515 (protein binding)
Biological Process (BP): GO:0008150 (biological process), GO:0008152 (metabolic process), GO:0048518 (positive regulation of biological 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:0009605 (response to external stimulus), GO:0019222 (regulation of metabolic process), GO:0006807 (nitrogen compound metabolic process), GO:0035821 (modulation of process of another organism), GO:0071704 (organic substance metabolic process), GO:0044403 (biological process involved in symbiotic interaction), GO:0009056 (catabolic process), GO:0009892 (negative regulation of metabolic process), GO:0048522 (positive regulation of cellular process), GO:0009607 (response to biotic stimulus), GO:0050794 (regulation of cellular process), GO:0048583 (regulation of response to stimulus), GO:0009893 (positive regulation of metabolic process), GO:0051716 (cellular response to stimulus), GO:0065009 (regulation of molecular function), 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:0050790 (regulation of catalytic activity), GO:0051172 (negative regulation of nitrogen compound metabolic process), GO:1901564 (organonitrogen compound metabolic process), GO:0043207 (response to external biotic stimulus), GO:0052173 (response to defenses of other organism), GO:0010604 (positive regulation of macromolecule metabolic process), GO:0080134 (regulation of response to stress), GO:0044092 (negative regulation of molecular function), GO:0044248 (cellular catabolic process), GO:0019538 (protein metabolic process), GO:0075136 (response to host), GO:0060255 (regulation of macromolecule metabolic process), GO:0031324 (negative regulation of cellular metabolic process), GO:0043170 (macromolecule metabolic process), GO:0031348 (negative regulation of defense response), GO:0009894 (regulation of catabolic process), GO:0051701 (biological process involved in interaction with host), GO:0031325 (positive regulation of cellular metabolic process), GO:0010605 (negative regulation of macromolecule metabolic process), GO:0044003 (modulation by symbiont of host process), GO:0051171 (regulation of nitrogen compound metabolic process), GO:0031323 (regulation of cellular metabolic process), GO:0080090 (regulation of primary metabolic process), GO:1901575 (organic substance catabolic process), GO:0044260 (cellular macromolecule metabolic process), GO:0009896 (positive regulation of catabolic process), GO:0051173 (positive regulation of nitrogen compound metabolic process), GO:0031347 (regulation of defense response), GO:0052200 (response to host defenses), GO:0043086 (negative regulation of catalytic activity), GO:1901565 (organonitrogen compound catabolic process), GO:0006508 (proteolysis), GO:0042176 (regulation of protein catabolic process), GO:0051246 (regulation of protein metabolic process), GO:0051336 (regulation of hydrolase activity), GO:0030163 (protein catabolic process), GO:0051248 (negative regulation of protein metabolic process), GO:0052031 (modulation by symbiont of host defense response), GO:0036211 (protein modification process), GO:0044414 (suppression of host defenses by symbiont), GO:0009057 (macromolecule catabolic process), GO:0043412 (macromolecule modification), GO:0044265 (cellular macromolecule catabolic process), GO:0051247 (positive regulation of protein metabolic process), GO:0019219 (regulation of nucleobase-containing compound metabolic process), GO:0045732 (positive regulation of protein catabolic process), GO:0031331 (positive regulation of cellular catabolic process), GO:0051252 (regulation of RNA metabolic process), GO:0031329 (regulation of cellular catabolic process), GO:0032069 (regulation of nuclease activity), GO:0051253 (negative regulation of RNA metabolic process), GO:0045934 (negative regulation of nucleobase-containing compound metabolic process), GO:0060700 (regulation of ribonuclease activity), GO:0051346 (negative regulation of hydrolase activity), GO:0030162 (regulation of proteolysis), GO:0070647 (protein modification by small protein conjugation or removal), GO:0043632 (modification-dependent macromolecule catabolic process), GO:0051603 (proteolysis involved in protein catabolic process), GO:0052170 (suppression by symbiont of host innate immune response), GO:0045862 (positive regulation of proteolysis), GO:1901800 (positive regulation of proteasomal protein catabolic process), GO:2000060 (positive regulation of ubiquitin-dependent protein catabolic process), GO:0052572 (response to host immune response), GO:0030682 (mitigation of host defenses by symbiont), GO:0061136 (regulation of proteasomal protein catabolic process), GO:2000058 (regulation of ubiquitin-dependent protein catabolic process), GO:0010498 (proteasomal protein catabolic process), GO:1903052 (positive regulation of proteolysis involved in protein catabolic process), GO:0032434 (regulation of proteasomal ubiquitin-dependent protein catabolic process), GO:0010466 (negative regulation of peptidase activity), GO:1903050 (regulation of proteolysis involved in protein catabolic process), GO:0032446 (protein modification by small protein conjugation), GO:0032436 (positive regulation of proteasomal ubiquitin-dependent protein catabolic process), GO:0019941 (modification-dependent protein catabolic process), GO:0052167 (modulation by symbiont of host innate immune response), GO:0006511 (ubiquitin-dependent protein catabolic process), GO:0016567 (protein ubiquitination), GO:0052562 (suppression by symbiont of host immune response)
Cellular Component (CC): GO:0005575 (cellular component), GO:0032991 (protein-containing complex), GO:1902494 (catalytic complex), GO:0140535 (intracellular protein-containing complex), GO:1990234 (transferase complex), GO:0000151 (ubiquitin ligase complex), GO:0031461 (cullin-RING ubiquitin ligase complex), GO:0031462 (Cul2-RING ubiquitin ligase complex)