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Q8JN60

- POLG_BECNB

UniProt

Q8JN60 - POLG_BECNB

Protein

Genome polyprotein

Gene

ORF1

Organism
Bovine enteric calicivirus NB (isolate Bovine/United States/Nebraska/1980) (BEC-NB)
Status
Reviewed - Annotation score: 5 out of 5- Protein inferred from homologyi
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    • History
      Entry version 64 (01 Oct 2014)
      Sequence version 1 (01 Oct 2002)
      Previous versions | rss
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    Functioni

    NTPase presumably plays a role in replication.By similarity
    Viral genome-linked protein is covalently linked to the 5'-end of the positive-strand, negative-strand genomic RNAs and subgenomic RNA. Acts as a genome-linked replication primer. May recruit ribosome to viral RNA thereby promoting viral proteins translation By similarity.By similarity
    3C-like protease processes the polyprotein: 3CLpro-RdRp is first released by autocleavage, then all other proteins are cleaved.By similarity
    RNA-directed RNA polymerase replicates genomic and antigenomic RNA by recognizing replications specific signals. Transcribes also a subgenomic mRNA by initiating RNA synthesis internally on antigenomic RNA. This sgRNA codes for structural proteins. Catalyzes the covalent attachment VPg with viral RNAs By similarity.PROSITE-ProRule annotation
    Capsid protein self assembles to form an icosahedral capsid with a T=3 symmetry, about 35 nm in diameter, and consisting of 180 capsid proteins. A smaller form of capsid with a diameter of 23 nm might be capsid proteins assembled as icosahedron with T=1 symmetry. The capsid encapsulate VP2 proteins and genomic or subgenomic RNA. Attaches virion to target cells inducing endocytosis of the viral particle. Acidification of the endosome induces conformational change of capsid protein thereby injecting virus genomic RNA into host cytoplasm By similarity.By similarity

    Catalytic activityi

    NTP + H2O = NDP + phosphate.
    Endopeptidase with a preference for cleavage when the P1 position is occupied by Glu-|-Xaa and the P1' position is occupied by Gly-|-Yaa.
    Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).PROSITE-ProRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei302 – 3032Cleavage; by 3CLproSequence Analysis
    Sitei645 – 6462Cleavage; by 3CLproSequence Analysis
    Sitei925 – 9262Cleavage; by 3CLproSequence Analysis
    Sitei990 – 9912Cleavage; by 3CLproSequence Analysis
    Active sitei1025 – 10251For 3CLpro activityBy similarity
    Active sitei1103 – 11031For 3CLpro activitySequence Analysis
    Sitei1174 – 11752Cleavage; by 3CLproSequence Analysis
    Sitei1659 – 16602Cleavage; by 3CLproSequence Analysis

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi456 – 4638ATPPROSITE-ProRule annotation

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. cysteine-type endopeptidase activity Source: InterPro
    3. RNA binding Source: InterPro
    4. RNA-directed RNA polymerase activity Source: UniProtKB-KW
    5. RNA helicase activity Source: InterPro

    GO - Biological processi

    1. RNA-protein covalent cross-linking Source: UniProtKB-KW
    2. transcription, DNA-templated Source: InterPro
    3. viral RNA genome replication Source: InterPro

    Keywords - Molecular functioni

    Helicase, Hydrolase, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Thiol protease, Transferase

    Keywords - Biological processi

    Viral RNA replication

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Genome polyprotein
    Cleaved into the following 7 chains:
    Alternative name(s):
    p37
    Alternative name(s):
    VPg
    p8
    3C-like protease (EC:3.4.22.66)
    Short name:
    3CLpro
    Alternative name(s):
    p20
    Alternative name(s):
    p53
    Alternative name(s):
    VP1
    Gene namesi
    ORF Names:ORF1
    OrganismiBovine enteric calicivirus NB (isolate Bovine/United States/Nebraska/1980) (BEC-NB)
    Taxonomic identifieri190239 [NCBI]
    Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeNebovirus
    Virus hostiBos taurus (Bovine) [TaxID: 9913]
    ProteomesiUP000008174: Genome

    Subcellular locationi

    GO - Cellular componenti

    1. host cell cytoplasm Source: UniProtKB-SubCell
    2. viral capsid Source: UniProtKB-KW

    Keywords - Cellular componenti

    Capsid protein, Host cytoplasm, Virion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 22102210Genome polyproteinPRO_0000341628Add
    BLAST
    Chaini1 – 302302Protein p34PRO_0000341629Add
    BLAST
    Chaini303 – 645343NTPasePRO_0000341630Add
    BLAST
    Chaini646 – 925280Protein p30PRO_0000341631Add
    BLAST
    Chaini926 – 99065Viral genome-linked proteinPRO_0000341632Add
    BLAST
    Chaini991 – 11741843C-like proteasePRO_0000341633Add
    BLAST
    Chaini1175 – 1659485RNA-directed RNA polymerasePRO_0000341634Add
    BLAST
    Chaini1660 – 2210551Capsid proteinPRO_0000341635Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei940 – 9401O-(5'-phospho-RNA)-tyrosineBy similarity

    Post-translational modificationi

    Specific enzymatic cleavages by its own cysteine protease yield mature proteins. The protease cleaves itself from the nascent polyprotein autocatalytically By similarity.By similarity
    VPg is uridylylated by the polymerase and is covalently attached to the 5'-end of the polyadenylated genomic and subgenomic RNAs. This uridylylated form acts as a nucleotide-peptide primer for the polymerase By similarity.By similarity

    Keywords - PTMi

    Covalent protein-RNA linkage, Phosphoprotein

    Structurei

    3D structure databases

    ProteinModelPortaliQ8JN60.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini426 – 585160SF3 helicasePROSITE-ProRule annotationAdd
    BLAST
    Domaini1010 – 1109100Peptidase C24Add
    BLAST
    Domaini1379 – 1501123RdRp catalyticPROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Contains 1 peptidase C24 domain.Curated
    Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation
    Contains 1 SF3 helicase domain.PROSITE-ProRule annotation

    Family and domain databases

    Gene3Di2.60.120.20. 1 hit.
    3.40.50.300. 2 hits.
    InterProiIPR004005. Calicivirus_coat.
    IPR004004. Helic/Pol/Pept_Calicivir-typ.
    IPR000605. Helicase_SF3_ssDNA/RNA_vir.
    IPR014759. Helicase_SF3_ssRNA_vir.
    IPR027417. P-loop_NTPase.
    IPR000317. Peptidase_C24.
    IPR001205. RNA-dir_pol_C.
    IPR007094. RNA-dir_pol_PSvirus.
    IPR009003. Trypsin-like_Pept_dom.
    IPR029053. Viral_coat.
    [Graphical view]
    PfamiPF00915. Calici_coat. 1 hit.
    PF03510. Peptidase_C24. 1 hit.
    PF00680. RdRP_1. 1 hit.
    PF00910. RNA_helicase. 1 hit.
    [Graphical view]
    PRINTSiPR00916. 2CENDOPTASE.
    PR00918. CALICVIRUSNS.
    SUPFAMiSSF50494. SSF50494. 1 hit.
    SSF52540. SSF52540. 1 hit.
    PROSITEiPS50507. RDRP_SSRNA_POS. 1 hit.
    PS51218. SF3_HELICASE_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    Q8JN60-1 [UniParc]FASTAAdd to Basket

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    MAPVVSRDQC KPKTPKPHRP APPHRCTTRC PEDCGWYVGR CSCPNVCQRE     50
    GWDDFFVADK VKPPSYVASK TSVADVVDWL LEEDPATDGP SEFDLTQFFQ 100
    AYTDKSHQIH RDYAPDQLAQ ALDMAYILSV DPPDIKLPEY EATRFTHDTS 150
    YKGKLPKWLR VYGIKSRELA KKAVTNIRGG AHWAKGLFKQ MWDSLPGWSE 200
    VEAYFKAFFA GIITGVEDAL SKSPSSVWTS LKLTPLLYIW RNINECSDIA 250
    VILGAFWATL ELYNIPSKVY DLVSTALGPM VQELARKVIN VVKGDGSGPK 300
    QEGGRPSFSI PGVLLATFLS AIILGSMPSD GLIKKILRGC ATAAGLVGGF 350
    NAVKSIITTV QGASACKDVK KLASQLMCVT TMAATVSTRG ERQVLASMLN 400
    DLNESVRERL VDPAYASLVP QLSAMSNKIV ELSTMNASAL SAARKRTPAK 450
    IIVLCGPPGH GKSVAAHKLA KMLNPNEPSI WNPFSDHHDE YTAEEVMVID 500
    ETPAEPGQWI EDLIAMGSNS PFVPNYDRVE NKTRCFDSKY VIITTNHNPL 550
    INPTHTRAAA LARRLTLVYV NSPDVADFLR QHPGVPPPAT LFKADCSHLH 600
    FDIHPYNSIG TTAIVGHNGT TPVPRAKRVS LEGLCKHVKE MPDREGPPDG 650
    VPERMVLVAP DKGTARFVEA VINTYHNSGL VAQPAAWDTT PQPYQLAVTW 700
    QGSNSTVTGQ RWDCNPQTPF VAPHFTRNMF KRVLGTEVPE YHLLAYACRI 750
    TSSSLGDKSL PVPNPTVVIN DPSPTRLALA LMRHLKNPIA SGLRVVWDLF 800
    RGCATGPKRL FTWALSQEWN PMPVTTAFTF PAGTVILHTA GGVRVVVLPP 850
    GPQFGLTEVA RLADHSGQDD PVVPDMFGAT WTELLWRLLK VIGTFLANYG 900
    VAIAGLTLSI AAFKTANKSA KNDRQGWLSG SGVALSDEEY DEWMKYSKKK 950
    GKKINADEFL QLRHRAAMGN DDDDARDYRS FYTAYQLGRE GNNCDDIPLH 1000
    PAVGPTTGGG YYVHIGNGVG VTLKHVASGE DVIKELGNDL VKIRTKHHKV 1050
    GDPAMVVGDG MPVKFVTGHL VVDTRSESVV FDQTRLNVIR VKVPGLETRR 1100
    GYCGLPYVNS AGQVVGLHQG SYGVGDKVIT PITPEPTAPP DTIMWRGLEC 1150
    ARSDIVTHLP HGTKYSVSPG MKEEATKCSH QPAPLGRNDP RCGQTQVAMV 1200
    VKALSPYTGS PAVEKLDGCL VAAISEVRTA IQSLTPKGGF RPLTFAAAWQ 1250
    SLDLSTSAGA LAPGKTKRDL CDPDTGMPTG KYKEELLRAW SRAGTGTALD 1300
    HTYIVALKDE LRPVEKVAEG KRRLIWGADA RVALIASAAL SPIANALKTV 1350
    TNLLPVQVGV DPSSASCVSA WVNRLNRHDH CLELDYSKWD STMSPVLINI 1400
    AIDILCNTCA SDGLRVAVCQ TLKTRPTALV EGVAVPTKSG LPSGMPFTSQ 1450
    INSIVHWILW SATVRKCSLP LNIGSVNELA PFLTYGDDGL YTIPSHLTKS 1500
    IDEIVSTLKG YGLSPTAPDK GMNIEIKKTS FTYMSGPVFL KRRIVLTPGG 1550
    HRALLDLTSL ARQPVWVNGP RRSVWDHEAQ PIEIDSEVRT IQLQNVLIES 1600
    AWHQPQDFNQ VAALVYKSAE ASGITIPRYS LEEARAIYDG RFYGIQHVSM 1650
    PCNSDLIREG NMSDNKSIPE QQHESSRAMD AGATGAAAAA PAPPVAAAPA 1700
    SGLVGALVAE PQSGPSTEQW RTAYTLFGTV SWNANAGPGT ILTVGRLGPG 1750
    MNPYTQHIAA MYGGWAGGMD IRITIAGSGF IGGTLAVAAI PPGVDPESVN 1800
    VLRMPHVLID ARGGVPLEVT LEDIRTSLYH PMGDANTASL VIAVMTGLIN 1850
    PLGTDTLSVT VQLETRPGRD WVFFSLLPPT AGVASADPSQ LLTRVALATS 1900
    PEVRFGTGVL GILGLPSNPS VNRVYDVQSR TRGWSFPIPS SSVFMGDARN 1950
    VEHTRRVMVQ SSAPNNPLSD VFPDGFPDFI PQSDTEPDGG AVIAGQVLPH 2000
    PGDNDNFWRL TPVVRGNTTA AINTIPERFN QVYFINLADE EAVSAATEEL 2050
    RFNGIQGIFG QRTTARAVQV MQGYVPRAEH IIRPAGFAGV GPQGPNVPIG 2100
    FAGTMPNFNA TASGADDLVP VWGPTLVHTA SLLAGTTYEL AENSMYVFSV 2150
    STSTSTFELG MLANGTWLGP AQLAGTGITW TEVLSVTYMG MRFAYNPLSG 2200
    QGIGGESRRL 2210
    Length:2,210
    Mass (Da):238,639
    Last modified:October 1, 2002 - v1
    Checksum:i5D499C0C3188839E
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY082891 Genomic RNA. Translation: AAL99277.1.
    RefSeqiNP_663315.1. NC_004064.1.

    Genome annotation databases

    GeneIDi951161.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY082891 Genomic RNA. Translation: AAL99277.1 .
    RefSeqi NP_663315.1. NC_004064.1.

    3D structure databases

    ProteinModelPortali Q8JN60.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 951161.

    Family and domain databases

    Gene3Di 2.60.120.20. 1 hit.
    3.40.50.300. 2 hits.
    InterProi IPR004005. Calicivirus_coat.
    IPR004004. Helic/Pol/Pept_Calicivir-typ.
    IPR000605. Helicase_SF3_ssDNA/RNA_vir.
    IPR014759. Helicase_SF3_ssRNA_vir.
    IPR027417. P-loop_NTPase.
    IPR000317. Peptidase_C24.
    IPR001205. RNA-dir_pol_C.
    IPR007094. RNA-dir_pol_PSvirus.
    IPR009003. Trypsin-like_Pept_dom.
    IPR029053. Viral_coat.
    [Graphical view ]
    Pfami PF00915. Calici_coat. 1 hit.
    PF03510. Peptidase_C24. 1 hit.
    PF00680. RdRP_1. 1 hit.
    PF00910. RNA_helicase. 1 hit.
    [Graphical view ]
    PRINTSi PR00916. 2CENDOPTASE.
    PR00918. CALICVIRUSNS.
    SUPFAMi SSF50494. SSF50494. 1 hit.
    SSF52540. SSF52540. 1 hit.
    PROSITEi PS50507. RDRP_SSRNA_POS. 1 hit.
    PS51218. SF3_HELICASE_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Characterization of an enteropathogenic bovine calicivirus representing a potentially new calicivirus genus."
      Smiley J.R., Chang K.O., Hayes J., Vinje J., Saif L.J.
      J. Virol. 76:10089-10098(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

    Entry informationi

    Entry nameiPOLG_BECNB
    AccessioniPrimary (citable) accession number: Q8JN60
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 1, 2008
    Last sequence update: October 1, 2002
    Last modified: October 1, 2014
    This is version 64 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programViral Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome

    Documents

    1. Peptidase families
      Classification of peptidase families and list of entries
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3