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Q288N7

- POLG_BECN1

UniProt

Q288N7 - POLG_BECN1

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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

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 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-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_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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        10         20         30         40         50
MAPVVSRDRH RHKIPKPHQP APPHRCTVWC PEDCGWYVGR CSCPKSCQRE
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
YKGKLPRWLR VYGFKSRELA KKAITNIKGG AHWAKGLFKQ AWDTLPGWSE
210 220 230 240 250
VEAYFKAFFA GIITGVEDAL SKSPSSVWTS LKLTPLLYIW RNINECSDIP
260 270 280 290 300
VILGAFWATL ELYNIPSKVY DLVSTALGPM VQDLARRVIN IIKGDGNGPK
310 320 330 340 350
QEGGRPSFSI PGVLLATFLS AIILGSMPSD GIIKKVLRGC ATAAGLVGGF
360 370 380 390 400
NAVKSIITTV QGASACKDVK KLASQLMCVT TMAATVSTRG ERQVLASMLN
410 420 430 440 450
DLNESVRERL VDPAFAALVP QLSAMSSKIM ELSTINAAAL SAARKRVPAK
460 470 480 490 500
IVVLCGPPGH GKSVAAHKLA KMLNPNEPSI WNPFSDHHDE YTAEDVVIID
510 520 530 540 550
ETPAEPGQWV EDLIAMGSNS PFVPNYDRVE NKTRCFDSKY VLITTNHNPL
560 570 580 590 600
INPTHSRAAA LARRLTWVYV NSPDVADFLR QHPGVAPPAT LFKADCSHLN
610 620 630 640 650
FDIHPYNSIG TTAVVGHNGT TPLPRAKRTS LEGLCKHIKD LPDREGPPDG
660 670 680 690 700
VPERMVLVAP DKGTARFVEA VINTYHNSGL VAQPAAWDTT PQKYQLAVTW
710 720 730 740 750
QGSTSSVVGQ 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
GPQFGLTEVT HLADHSGQDD PVVPDMFGQT WTELLWRLLK VIGTFLANYG
910 920 930 940 950
VAIAGLTLSI AAFKTANKST RNDRQGWLSG SGVALSDEEY DEWMKYSKKK
960 970 980 990 1000
GKKINADEFL QLRHRAAMGN DDDDARDYRS FYTAYQLGRE GNNCEDLPLH
1010 1020 1030 1040 1050
PAVGPTTGGG YYVHIGNGVG ITLKHVASGE DVIKELGNDL VKIRARHHKM
1060 1070 1080 1090 1100
GDPAMVVGEG APVKFVTGHL VVDARNESVV FDQTRLSVVR VKVPGLETQR
1110 1120 1130 1140 1150
GYCGLPYVNS AGHVVGLHQG SYGVGDKVFT PITDAPAASP DTIMWRGLEC
1160 1170 1180 1190 1200
TRSDIVTHLP HGTKYSISPG MREEAHKCTH QPASLGRNDP RCNQTQVAMV
1210 1220 1230 1240 1250
VKALTPYTSA PAIEKLDPCM VAAITEVRTA IQSLTPKGGF RPLTFAAAWQ
1260 1270 1280 1290 1300
SLDLSTSAGA LAPGKTKRDL CDPDTGMPAG KYREMLLAAW SRAGTGTPLD
1310 1320 1330 1340 1350
HTYIVALKDE LRPVEKVAEG KRRLIWGADA RVALIASAAL TPVANALKTV
1360 1370 1380 1390 1400
TNLLPIQVGV DPSSANCVSS WVGRLQRHDH CLELDYSKWD STMSPVIINI
1410 1420 1430 1440 1450
AIDILCNTCG SDSLRMAVAQ TLKSRPTALV EGVSVPTKSG LPSGMPFTSQ
1460 1470 1480 1490 1500
INSIVHWILW SATVRKCSLP LHIGSVNELA PFLTYGDDGL YTIPSHLTKS
1510 1520 1530 1540 1550
IDEIISTLKG YGLSPTAPDK GANVEIKRTS FTYLSGPVFL KRRIVLTPGG
1560 1570 1580 1590 1600
HRALLDLTSL ARQPVWVNGP RRSVWNHEAQ PIEIDAETRT IQLQNVLIEL
1610 1620 1630 1640 1650
AWHQPQDFDH VLALVVKSAE ASGLTIPRYS QEEARAIYDG RYYGIQHVSL
1660 1670 1680 1690 1700
PNNSDLIREG NMSDNKSTPE QQHESSRAMD AGATGAAAAA PAPPVAAAPA
1710 1720 1730 1740 1750
SGLVGALVAE PQSGPSAEQW RTAYTLFGTV SWNANAGPGT ILTVGRLGPG
1760 1770 1780 1790 1800
MNPYTQHIAA MYGGWAGGMD IRITIAGSGF IGGTLAVAAI PPGVDPESVN
1810 1820 1830 1840 1850
VLRMPHVLID ARGGVPLEVT LEDIRTSLYH PMGDTNTASL 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
VEHNRRVMVQ SSAPNNPLSD VFPDGFPDFV PQSDTEPDGG AVIAGQVLPH
2010 2020 2030 2040 2050
PGDNDNFWRL TPVVRGNTTA AINTIPERFN QVYFINLADE EAVSAATEEL
2060 2070 2080 2090 2100
RFNGIQGIFG QRTNARAVQV 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):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 29, 2014
This is version 55 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