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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).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
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-KW
  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 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

« Hide

        10         20         30         40         50
MAPVVSRDQC KPKTPKPHRP APPHRCTTRC PEDCGWYVGR CSCPNVCQRE
60 70 80 90 100
GWDDFFVADK VKPPSYVASK TSVADVVDWL LEEDPATDGP SEFDLTQFFQ
110 120 130 140 150
AYTDKSHQIH RDYAPDQLAQ ALDMAYILSV DPPDIKLPEY EATRFTHDTS
160 170 180 190 200
YKGKLPKWLR VYGIKSRELA KKAVTNIRGG AHWAKGLFKQ MWDSLPGWSE
210 220 230 240 250
VEAYFKAFFA GIITGVEDAL SKSPSSVWTS LKLTPLLYIW RNINECSDIA
260 270 280 290 300
VILGAFWATL ELYNIPSKVY DLVSTALGPM VQELARKVIN VVKGDGSGPK
310 320 330 340 350
QEGGRPSFSI PGVLLATFLS AIILGSMPSD GLIKKILRGC ATAAGLVGGF
360 370 380 390 400
NAVKSIITTV QGASACKDVK KLASQLMCVT TMAATVSTRG ERQVLASMLN
410 420 430 440 450
DLNESVRERL VDPAYASLVP QLSAMSNKIV ELSTMNASAL SAARKRTPAK
460 470 480 490 500
IIVLCGPPGH GKSVAAHKLA KMLNPNEPSI WNPFSDHHDE YTAEEVMVID
510 520 530 540 550
ETPAEPGQWI EDLIAMGSNS PFVPNYDRVE NKTRCFDSKY VIITTNHNPL
560 570 580 590 600
INPTHTRAAA LARRLTLVYV NSPDVADFLR QHPGVPPPAT LFKADCSHLH
610 620 630 640 650
FDIHPYNSIG TTAIVGHNGT TPVPRAKRVS LEGLCKHVKE MPDREGPPDG
660 670 680 690 700
VPERMVLVAP DKGTARFVEA VINTYHNSGL VAQPAAWDTT PQPYQLAVTW
710 720 730 740 750
QGSNSTVTGQ RWDCNPQTPF VAPHFTRNMF KRVLGTEVPE YHLLAYACRI
760 770 780 790 800
TSSSLGDKSL PVPNPTVVIN DPSPTRLALA LMRHLKNPIA SGLRVVWDLF
810 820 830 840 850
RGCATGPKRL FTWALSQEWN PMPVTTAFTF PAGTVILHTA GGVRVVVLPP
860 870 880 890 900
GPQFGLTEVA RLADHSGQDD PVVPDMFGAT WTELLWRLLK VIGTFLANYG
910 920 930 940 950
VAIAGLTLSI AAFKTANKSA KNDRQGWLSG SGVALSDEEY DEWMKYSKKK
960 970 980 990 1000
GKKINADEFL QLRHRAAMGN DDDDARDYRS FYTAYQLGRE GNNCDDIPLH
1010 1020 1030 1040 1050
PAVGPTTGGG YYVHIGNGVG VTLKHVASGE DVIKELGNDL VKIRTKHHKV
1060 1070 1080 1090 1100
GDPAMVVGDG MPVKFVTGHL VVDTRSESVV FDQTRLNVIR VKVPGLETRR
1110 1120 1130 1140 1150
GYCGLPYVNS AGQVVGLHQG SYGVGDKVIT PITPEPTAPP DTIMWRGLEC
1160 1170 1180 1190 1200
ARSDIVTHLP HGTKYSVSPG MKEEATKCSH QPAPLGRNDP RCGQTQVAMV
1210 1220 1230 1240 1250
VKALSPYTGS PAVEKLDGCL VAAISEVRTA IQSLTPKGGF RPLTFAAAWQ
1260 1270 1280 1290 1300
SLDLSTSAGA LAPGKTKRDL CDPDTGMPTG KYKEELLRAW SRAGTGTALD
1310 1320 1330 1340 1350
HTYIVALKDE LRPVEKVAEG KRRLIWGADA RVALIASAAL SPIANALKTV
1360 1370 1380 1390 1400
TNLLPVQVGV DPSSASCVSA WVNRLNRHDH CLELDYSKWD STMSPVLINI
1410 1420 1430 1440 1450
AIDILCNTCA SDGLRVAVCQ TLKTRPTALV EGVAVPTKSG LPSGMPFTSQ
1460 1470 1480 1490 1500
INSIVHWILW SATVRKCSLP LNIGSVNELA PFLTYGDDGL YTIPSHLTKS
1510 1520 1530 1540 1550
IDEIVSTLKG YGLSPTAPDK GMNIEIKKTS FTYMSGPVFL KRRIVLTPGG
1560 1570 1580 1590 1600
HRALLDLTSL ARQPVWVNGP RRSVWDHEAQ PIEIDSEVRT IQLQNVLIES
1610 1620 1630 1640 1650
AWHQPQDFNQ VAALVYKSAE ASGITIPRYS LEEARAIYDG RFYGIQHVSM
1660 1670 1680 1690 1700
PCNSDLIREG NMSDNKSIPE QQHESSRAMD AGATGAAAAA PAPPVAAAPA
1710 1720 1730 1740 1750
SGLVGALVAE PQSGPSTEQW RTAYTLFGTV SWNANAGPGT ILTVGRLGPG
1760 1770 1780 1790 1800
MNPYTQHIAA MYGGWAGGMD IRITIAGSGF IGGTLAVAAI PPGVDPESVN
1810 1820 1830 1840 1850
VLRMPHVLID ARGGVPLEVT LEDIRTSLYH PMGDANTASL VIAVMTGLIN
1860 1870 1880 1890 1900
PLGTDTLSVT VQLETRPGRD WVFFSLLPPT AGVASADPSQ LLTRVALATS
1910 1920 1930 1940 1950
PEVRFGTGVL GILGLPSNPS VNRVYDVQSR TRGWSFPIPS SSVFMGDARN
1960 1970 1980 1990 2000
VEHTRRVMVQ SSAPNNPLSD VFPDGFPDFI PQSDTEPDGG AVIAGQVLPH
2010 2020 2030 2040 2050
PGDNDNFWRL TPVVRGNTTA AINTIPERFN QVYFINLADE EAVSAATEEL
2060 2070 2080 2090 2100
RFNGIQGIFG QRTTARAVQV MQGYVPRAEH IIRPAGFAGV GPQGPNVPIG
2110 2120 2130 2140 2150
FAGTMPNFNA TASGADDLVP VWGPTLVHTA SLLAGTTYEL AENSMYVFSV
2160 2170 2180 2190 2200
STSTSTFELG MLANGTWLGP AQLAGTGITW TEVLSVTYMG MRFAYNPLSG
2210
QGIGGESRRL
Length:2,210
Mass (Da):238,639
Last modified:October 1, 2002 - v1
Checksum:i5D499C0C3188839E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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 29, 2014
This is version 65 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