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Q288N7

- POLG_BECN1

UniProt

Q288N7 - POLG_BECN1

Protein

Genome polyprotein

Gene

ORF1

Organism
Bovine enteric calicivirus Newbury agent-1 (isolate Bovine/UK/Newbury1/1976) (BEC)
Status
Reviewed - Annotation score: 5 out of 5- Protein inferred from homologyi
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    • History
      Entry version 54 (01 Oct 2014)
      Sequence version 1 (04 Apr 2006)
      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 Newbury agent-1 (isolate Bovine/UK/Newbury1/1976) (BEC)
    Taxonomic identifieri331642 [NCBI]
    Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeNebovirus
    Virus hostiBos taurus (Bovine) [TaxID: 9913]
    ProteomesiUP000000668: 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_0000402448Add
    BLAST
    Chaini1 – 302302Protein p34By similarityPRO_0000402449Add
    BLAST
    Chaini303 – 645343NTPaseBy similarityPRO_0000402450Add
    BLAST
    Chaini646 – 925280Protein p30By similarityPRO_0000402451Add
    BLAST
    Chaini926 – 99065Viral genome-linked proteinBy similarityPRO_0000402452Add
    BLAST
    Chaini991 – 11741843C-like proteaseBy similarityPRO_0000402453Add
    BLAST
    Chaini1175 – 1659485RNA-directed RNA polymeraseBy similarityPRO_0000402454Add
    BLAST
    Chaini1660 – 2210551Capsid proteinBy similarityPRO_0000402455Add
    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

    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

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi971 – 9744Poly-Asp
    Compositional biasi1686 – 16927Poly-Ala

    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. 1 hit.
    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.

    Q288N7-1 [UniParc]FASTAAdd to Basket

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    MAPVVSRDRH RHKIPKPHQP APPHRCTVWC PEDCGWYVGR CSCPKSCQRE     50
    GWDDFFVADK VKPPSYVASK TSVADVVDWL LEEDPATDGP SEFDLTQFFQ 100
    AYTDKSHQIH RDYAPDQLAQ ALDMAYILSV DPPDIKLPEY EATRFTHDTS 150
    YKGKLPRWLR VYGFKSRELA KKAITNIKGG AHWAKGLFKQ AWDTLPGWSE 200
    VEAYFKAFFA GIITGVEDAL SKSPSSVWTS LKLTPLLYIW RNINECSDIP 250
    VILGAFWATL ELYNIPSKVY DLVSTALGPM VQDLARRVIN IIKGDGNGPK 300
    QEGGRPSFSI PGVLLATFLS AIILGSMPSD GIIKKVLRGC ATAAGLVGGF 350
    NAVKSIITTV QGASACKDVK KLASQLMCVT TMAATVSTRG ERQVLASMLN 400
    DLNESVRERL VDPAFAALVP QLSAMSSKIM ELSTINAAAL SAARKRVPAK 450
    IVVLCGPPGH GKSVAAHKLA KMLNPNEPSI WNPFSDHHDE YTAEDVVIID 500
    ETPAEPGQWV EDLIAMGSNS PFVPNYDRVE NKTRCFDSKY VLITTNHNPL 550
    INPTHSRAAA LARRLTWVYV NSPDVADFLR QHPGVAPPAT LFKADCSHLN 600
    FDIHPYNSIG TTAVVGHNGT TPLPRAKRTS LEGLCKHIKD LPDREGPPDG 650
    VPERMVLVAP DKGTARFVEA VINTYHNSGL VAQPAAWDTT PQKYQLAVTW 700
    QGSTSSVVGQ RWDCNPQTPF VAPHFTRNMF KRVLGTEVPE YHLLAYACRI 750
    TSSSLGDKSL PVPNPTVVIN DPSPTRLALA LMRHLKNPIA SGLRVVWDLF 800
    RGCATGPKRL FTWALSQEWN PMPVTTAFTF PAGTVILHTA GGVRVVVLPP 850
    GPQFGLTEVT HLADHSGQDD PVVPDMFGQT WTELLWRLLK VIGTFLANYG 900
    VAIAGLTLSI AAFKTANKST RNDRQGWLSG SGVALSDEEY DEWMKYSKKK 950
    GKKINADEFL QLRHRAAMGN DDDDARDYRS FYTAYQLGRE GNNCEDLPLH 1000
    PAVGPTTGGG YYVHIGNGVG ITLKHVASGE DVIKELGNDL VKIRARHHKM 1050
    GDPAMVVGEG APVKFVTGHL VVDARNESVV FDQTRLSVVR VKVPGLETQR 1100
    GYCGLPYVNS AGHVVGLHQG SYGVGDKVFT PITDAPAASP DTIMWRGLEC 1150
    TRSDIVTHLP HGTKYSISPG MREEAHKCTH QPASLGRNDP RCNQTQVAMV 1200
    VKALTPYTSA PAIEKLDPCM VAAITEVRTA IQSLTPKGGF RPLTFAAAWQ 1250
    SLDLSTSAGA LAPGKTKRDL CDPDTGMPAG KYREMLLAAW SRAGTGTPLD 1300
    HTYIVALKDE LRPVEKVAEG KRRLIWGADA RVALIASAAL TPVANALKTV 1350
    TNLLPIQVGV DPSSANCVSS WVGRLQRHDH CLELDYSKWD STMSPVIINI 1400
    AIDILCNTCG SDSLRMAVAQ TLKSRPTALV EGVSVPTKSG LPSGMPFTSQ 1450
    INSIVHWILW SATVRKCSLP LHIGSVNELA PFLTYGDDGL YTIPSHLTKS 1500
    IDEIISTLKG YGLSPTAPDK GANVEIKRTS FTYLSGPVFL KRRIVLTPGG 1550
    HRALLDLTSL ARQPVWVNGP RRSVWNHEAQ PIEIDAETRT IQLQNVLIEL 1600
    AWHQPQDFDH VLALVVKSAE ASGLTIPRYS QEEARAIYDG RYYGIQHVSL 1650
    PNNSDLIREG NMSDNKSTPE QQHESSRAMD AGATGAAAAA PAPPVAAAPA 1700
    SGLVGALVAE PQSGPSAEQW RTAYTLFGTV SWNANAGPGT ILTVGRLGPG 1750
    MNPYTQHIAA MYGGWAGGMD IRITIAGSGF IGGTLAVAAI PPGVDPESVN 1800
    VLRMPHVLID ARGGVPLEVT LEDIRTSLYH PMGDTNTASL VIAVMTGLIN 1850
    PLGTDTLSVT VQLETRPGRD WVFFSLLPPT AGVASADPSQ LLTRVALATS 1900
    PEVRFGTGVL GILGLPSNPS VNRVYDVQSR TRGWSFPIPS SSVFMGDARN 1950
    VEHNRRVMVQ SSAPNNPLSD VFPDGFPDFV PQSDTEPDGG AVIAGQVLPH 2000
    PGDNDNFWRL TPVVRGNTTA AINTIPERFN QVYFINLADE EAVSAATEEL 2050
    RFNGIQGIFG QRTNARAVQV MQGYVPRAEH IIRPAGFAGV GPQGPNVPIG 2100
    FAGTMPNFNA TASGADDLVP VWGPTLVHTA SLLAGTTYEL AENSMYVFSV 2150
    STSTSTFELG MLANGTWLGP AQLAGTGITW TEVLSVTYMG MRFAYNPLSG 2200
    QGIGGESRRL 2210
    Length:2,210
    Mass (Da):239,021
    Last modified:April 4, 2006 - v1
    Checksum:iF05AF2411FE610DE
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    DQ013304 Genomic RNA. Translation: AAY60849.1.
    RefSeqiYP_529550.1. NC_007916.1.

    Genome annotation databases

    GeneIDi5130542.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    DQ013304 Genomic RNA. Translation: AAY60849.1 .
    RefSeqi YP_529550.1. NC_007916.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 5130542.

    Family and domain databases

    Gene3Di 2.60.120.20. 1 hit.
    3.40.50.300. 1 hit.
    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. "Genomic characterization of the unclassified bovine enteric virus Newbury agent-1 (Newbury1) endorses a new genus in the family Caliciviridae."
      Oliver S.L., Asobayire E., Dastjerdi A.M., Bridger J.C.
      Virology 350:240-250(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

    Entry informationi

    Entry nameiPOLG_BECN1
    AccessioniPrimary (citable) accession number: Q288N7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 30, 2010
    Last sequence update: April 4, 2006
    Last modified: October 1, 2014
    This is version 54 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, Reference 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