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Q8JN60

- POLG_BECNB

UniProt

Q8JN60 - POLG_BECNB

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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

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.
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.
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.

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).

Sites

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

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi456 – 4638ATP Reviewed prediction

GO - Molecular functioni

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

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
Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, Host cytoplasm, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 22102210Genome polyprotein
PRO_0000341628Add
BLAST
Chaini1 – 302302Protein p34
PRO_0000341629Add
BLAST
Chaini303 – 645343NTPase
PRO_0000341630Add
BLAST
Chaini646 – 925280Protein p30
PRO_0000341631Add
BLAST
Chaini926 – 99065Viral genome-linked protein
PRO_0000341632Add
BLAST
Chaini991 – 11741843C-like protease
PRO_0000341633Add
BLAST
Chaini1175 – 1659485RNA-directed RNA polymerase
PRO_0000341634Add
BLAST
Chaini1660 – 2210551Capsid protein
PRO_0000341635Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei940 – 9401O-(5'-phospho-RNA)-tyrosine By 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.
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.

Keywords - PTMi

Covalent protein-RNA linkage, Phosphoprotein

Structurei

3D structure databases

ProteinModelPortaliQ8JN60.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini426 – 585160SF3 helicase
Add
BLAST
Domaini1010 – 1109100Peptidase C24
Add
BLAST
Domaini1379 – 1501123RdRp catalytic
Add
BLAST

Sequence similaritiesi

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: July 9, 2014
This is version 63 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

Similar proteinsi