Q96725 (POLG_EBHSG) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Genome polyprotein

Alternative name(s):
p254

Cleaved into the following 11 chains:

1. Protein p16
2. Protein p23
3. NTPase
   EC=3.6.1.15
   Alternative name(s):
   2C-like protein
   P2C
   p37
4. Precursor p41
5. Protein p29
6. Protein p23/2
7. Protein p18
8. Viral genome-linked protein
   Alternative name(s):
   VPg
   p13
9. 3C-like protease
   Short name=3CLpro
   EC=3.4.22.66
   Alternative name(s):
   Calicivirin
   Thiol protease P3C
   p15
10. RNA-directed RNA polymerase
    EC=2.7.7.48
    Alternative name(s):
    3Dpol
    p58
11. Capsid protein VP60

Gene names

ORF Names:

ORF1

Organism

European brown hare syndrome virus (strain GD) (Ha/LV/EBHSV/GD/1989/FR) (EBHSV-GD)

Taxonomic identifier

316979 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA positive-strand viruses, no DNA stage › Caliciviridae › Lagovirus › European brown hare syndrome virus

Virus host

Lepus europaeus (European hare) [TaxID: 9983]

Protein attributes

Sequence length	2334 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

General annotation (Comments)

Function	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 (p72) 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 encodes for structural proteins. Catalyzes the covalent attachment VPg with viral RNAs By similarity. Capsid protein VP60 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 by binding histo-blood group antigens, 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 activity	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).
Subunit structure	Binds to histo-blood group antigens at surface of target cells By similarity.
Subcellular location	Capsid protein VP60: Virion. Host cytoplasm By similarity.
Post-translational modification	Specific enzymatic cleavages by its own cysteine protease yield mature proteins. The protease cleaves itself from the nascent polyprotein autocatalytically. Precursor p41 can be cleaved by viral 3CLpro into protein p19 and VPg, or cleaved by host protease into protein p23/2 and protein p18 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.
Miscellaneous	Two differents RNAs lead the expression of the capsid protein. One arises from the cleavage of the polyprotein translated from the genomic RNA and the other from the translation of a subgenomic RNA derived from the (-)RNA template. Capsid protein expressed from the subgenomic mRNA is produced in much larger amounts than the cleaved one By similarity.
Sequence similarities	Contains 1 peptidase C24 domain. Contains 1 RdRp catalytic domain. Contains 1 SF3 helicase domain.

Ontologies

Keywords
Biological process	Viral RNA replication
Cellular component	Host cytoplasm Virion
Coding sequence diversity	Alternative promoter usage
Ligand	ATP-binding Nucleotide-binding
Molecular function	Capsid protein Helicase Hydrolase Nucleotidyltransferase Protease RNA-directed RNA polymerase Thiol protease Transferase
PTM	Covalent protein-RNA linkage Disulfide bond Phosphoprotein
Gene Ontology (GO)
Biological_process	RNA-protein covalent cross-linking Inferred from electronic annotation. Source: UniProtKB-KW proteolysis Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: InterPro viral genome replication Inferred from electronic annotation. Source: InterPro
Cellular_component	host cell cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell viral capsid Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW RNA binding Inferred from electronic annotation. Source: InterPro RNA helicase activity Inferred from electronic annotation. Source: InterPro RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW cysteine-type endopeptidase activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative promoter usage. [Align] [Select]

Isoform Genome polyprotein (identifier: Q96725-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Note: Produced from the genomic RNA.

Isoform Subgenomic capsid protein VP60 (identifier: Q96725-2)

Also known as: VP1;

The sequence of this isoform differs from the canonical sequence as follows:
     1-1758: Missing.

Note: Produced from the subgenomic RNA.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 2334	2334	Genome polyprotein		PRO_0000341986
	Chain	1 – 138	138	Protein p16 By similarity		PRO_0000036986
	Chain	139 – 334	196	Protein p23 By similarity		PRO_0000036987
	Chain	335 – 711	377	NTPase By similarity		PRO_0000036988
	Chain	712 – 1108	397	Precursor p41		PRO_0000341987
	Chain	712 – 986	275	Protein p29 By similarity		PRO_0000036989
	Chain	712 – 929	218	Protein p23/2		PRO_0000341988
	Chain	930 – 1101	172	Protein p18		PRO_0000341989
	Chain	987 – 1101	115	Viral genome-linked protein By similarity		PRO_0000036990
	Chain	1102 – 1244	143	3C-like protease By similarity		PRO_0000036991
	Chain	1245 – 1760	516	RNA-directed RNA polymerase By similarity		PRO_0000036992
	Chain	1761 – 2334	574	Capsid protein VP60 By similarity		PRO_0000036994
Regions
	Domain	487 – 647	161	SF3 helicase
	Domain	1113 – 1211	99	Peptidase C24
	Domain	1488 – 1612	125	RdRp catalytic
Sites
	Active site	1128	1	For 3CLpro activity By similarity
	Active site	1152	1	For 3CLpro activity By similarity
	Active site	1205	1	For 3CLpro activity Potential
	Site	138 – 139	2	Cleavage; by 3CLpro By similarity
	Site	334 – 335	2	Cleavage; by 3CLpro By similarity
	Site	711 – 712	2	Cleavage; by 3CLpro By similarity
	Site	929 – 930	2	Cleavage; by host By similarity
	Site	986 – 987	2	Cleavage; by 3CLpro By similarity
	Site	1101 – 1102	2	Cleavage; by 3CLpro By similarity
	Site	1244 – 1245	2	Cleavage; by 3CLpro By similarity
	Site	1760 – 1761	2	Cleavage; by 3CLpro By similarity
Amino acid modifications
	Modified residue	1007	1	O-(5'-phospho-RNA)-tyrosine By similarity
	Disulfide bond	1577 ↔ 1584		By similarity
Natural variations
	Alternative sequence	1 – 1758	1758	Missing in isoform Subgenomic capsid protein VP60.		VSP_034377

Sequences

	Sequence		Length	Mass (Da)
	Isoform Genome polyprotein [UniParc]. Last modified February 1, 1997. Version 1. Checksum: 3865CFA2457C0FB6	FASTA	2,334	255,925
	10 20 30 40 50 60 MAVASRPCGV ATSVLPAKKP LSFFTDLVGK TPPRCIRAPH TLAWPVFADL DNEEESPEIC 70 80 90 100 110 120 RKCGKYANGF GVFDLTDLGD VCLCSIRPQR HVGGPCCLCN KQYIRACGRY CARVLKHYKA 130 140 150 160 170 180 FNKVIPCLHS RQVKPVFEGE VEDLFVELGA PTRMNFTEAE LASQGASIMD RFVDLVEPCL 190 200 210 220 230 240 STEDSNFLDN ICSDASIRKR LEDEYDVDMI AAARARKDFA KTLKLALQDR ERKPDKWYSK 250 260 270 280 290 300 LGCITTKGRQ WAKKVVHGAK KLSDPLKTLA AILLVALHNC VAVDTTTMLS HFKPVNLLAI 310 320 330 340 350 360 LLDWTNDLPG FLTTLIRFME LYGVVQSTVN LVVDAIKSFW DRVMCATERC CDLLKRLFDK 370 380 390 400 410 420 FEDSVPTGPT AGCLIFMSFV FSVIVGYLPN NSVISTFMKG AGKLTTFAGV IGAIRTLWIT 430 440 450 460 470 480 INQHMVAKDI TSIQEKVMAV VKMANEAATL NQLEIVSVLC SELESTLTNR CTLPSYNQHM 490 500 510 520 530 540 GVLNAAQKVV ADIHTLVLGK INMTKQRPQP VAVVFKGAPG IGKTYLVHRL AKDLGCPHPS 550 560 570 580 590 600 NINFGLDHFD SYTGEDVAIA DEFNTSGDER WVELFIQMVN TNPCPLNCDK VENKNKVFSS 610 620 630 640 650 660 KYLLCTTNSS MVLNATHPRA TAFYRRVIIV DVRNKAVEGW QSTRHGSKPG KHCYTKDMSH 670 680 690 700 710 720 LTFQVYPHNM PAPGFVFVGE KLVKSQVAPR ELKYNELLDM IKNEHPDANF EGATKHEFVY 730 740 750 760 770 780 PDVQYEQALL MWKQYFLMYG CTARLAKVFV DDIPYNQVHV ARKSDPRSPG AVHHECELKY 790 800 810 820 830 840 IWRMVPHFAL GCVNMTNQLG TDLTQSQLDR ITCGVEGITV TTVDNILPFH SQNTLINPSF 850 860 870 880 890 900 LKLIWALRRH LRGLRGITQV ATFIWKVMCN PVCAYDTLIR TLTGAATFSE DPVTTTIVCP 910 920 930 940 950 960 NCTIQIHTCG GLLVRYSGDP APVASDNVDR GNQGIDCLTN PNLIAGFSWR QIADLFSTVM 970 980 990 1000 1010 1020 TSLCNNHLVN LATMAAIGAV ATKALQGVKG KTKRGRGARI NLGNDEYDEW QQMRREFNNA 1030 1040 1050 1060 1070 1080 HDMTAEEFLE LRNRAAMGSD DADAIKFRSW WTNRQLRQDE AHVTVVGKGG VRNEVIRTRV 1090 1100 1110 1120 1130 1140 RNAPKGPRTL DDGGFYDNDY EGLPGYLRFN GSGWMIHIGN GMYLSNTHTA RSSCSEIVTC 1150 1160 1170 1180 1190 1200 SPTTDLCLVK AEPIRSVAQI AEGTPVRDWK RASITTYGLK KTFSDSTKID VLAYDGPTQT 1210 1220 1230 1240 1250 1260 THGDCGLPLF DEAGKVVAIH TGKLLGFSKM CTLIDCTITK GVYENTDLFC GDPIDYRGLV 1270 1280 1290 1300 1310 1320 AFRVAGVEPR PPVSGTRYAK VPGVPEEYHT GYRPANLGRG DPDSHCTLMN IAVKNLQVYQ 1330 1340 1350 1360 1370 1380 QEPKLTKVDT FIERAAADVL GFLRFLTKGE RQMNLNFSAA FNVLDLSTSC GPFVPGKKID 1390 1400 1410 1420 1430 1440 HVKDGKLDEV LSKHLYKCWS VANSGKALHH VYACGLKDEL RPLDKVKEGK KRLLWGCNVG 1450 1460 1470 1480 1490 1500 VALCAAAVFH NLCFKLKTVA RFGPIAVGID MTSRDVDVMI TQLTSKAGDF LCLDYSKWDS 1510 1520 1530 1540 1550 1560 TMSPCVVRLA IDILADCCEQ TELTKSVVLT LKSLPMTVLD AMIVPTKRGL PSGMPFTSVI 1570 1580 1590 1600 1610 1620 NSICHWLLWS AAVYKACDEI GLFCSNLYED APFFVYGDDG VYAMTPMMVS LLPAILDNLR 1630 1640 1650 1660 1670 1680 DYGLSPTAAD KTEFIDVCPL KDISFLKRKF VMSELGWLSQ LDRSSILRQL EWTKTAKRHM 1690 1700 1710 1720 1730 1740 CIEECSELDK DERGVQLEEL QIHAAAHGEE FFELVKKELR RQQAFTRFSV FDYQTARKTL 1750 1760 1770 1780 1790 1800 GDRKRIVSVV PDDSFVNVME GKPRADAPGT ATTASVPGTT TDGMDPGVVA STDVVTADNV 1810 1820 1830 1840 1850 1860 AASVATAGIG GPPQQASPQE SWRVNFFYND VFTWSVTDAP GSILYTVQHS PQNNPFTQVL 1870 1880 1890 1900 1910 1920 SQMYAGWAGG MQFRFIVAGS GIFGGRLVCA IIPPGIQIQP GLEVRQFPHV VIDARSLEPV 1930 1940 1950 1960 1970 1980 TITMPDLRPE MYHPTGNPGL VPTLVVSVYN NLINPFGGTT SAIQVTVETR PSEDFEFVLI 1990 2000 2010 2020 2030 2040 RAPSSKTVDS VNPSWLLTTP VLTGAGSDNR WGAPIVGLQP VPGGFSTSNR HWNMNGETYG 2050 2060 2070 2080 2090 2100 WSSPRFDDID HPSGNVSYPS GSATNTIETW YANAGTATTN PISNIAPDGF PDMGAIPFSG 2110 2120 2130 2140 2150 2160 TTIPTGAWVG FGQVWNASNG TPYVGTVQAY ELGFANGAPS SIRPVTTTTG AQLVAKSIYG 2170 2180 2190 2200 2210 2220 VAIAQNQTSA GIIFLSKGMV STPGVAATTY TPQPSAIVTT PGTPVAAPIG KNTPIMFSAV 2230 2240 2250 2260 2270 2280 VRRTGDVNAG PGSANGTQYG VGSQPLSVTL GLSLTNYSSA LQPGQFFVWQ LNFASGFMEV 2290 2300 2310 2320 2330 GMNTDGYFYA GTGAYSGMID LTDLIDVRPV GVRPNTSTLV FNLAGVATTG YSYV
	Isoform Subgenomic capsid protein VP60 (VP1) [UniParc]. Checksum: 037C5471E67A732C	FASTA	576	60,081
	10 20 30 40 50 60 MEGKPRADAP GTATTASVPG TTTDGMDPGV VASTDVVTAD NVAASVATAG IGGPPQQASP 70 80 90 100 110 120 QESWRVNFFY NDVFTWSVTD APGSILYTVQ HSPQNNPFTQ VLSQMYAGWA GGMQFRFIVA 130 140 150 160 170 180 GSGIFGGRLV CAIIPPGIQI QPGLEVRQFP HVVIDARSLE PVTITMPDLR PEMYHPTGNP 190 200 210 220 230 240 GLVPTLVVSV YNNLINPFGG TTSAIQVTVE TRPSEDFEFV LIRAPSSKTV DSVNPSWLLT 250 260 270 280 290 300 TPVLTGAGSD NRWGAPIVGL QPVPGGFSTS NRHWNMNGET YGWSSPRFDD IDHPSGNVSY 310 320 330 340 350 360 PSGSATNTIE TWYANAGTAT TNPISNIAPD GFPDMGAIPF SGTTIPTGAW VGFGQVWNAS 370 380 390 400 410 420 NGTPYVGTVQ AYELGFANGA PSSIRPVTTT TGAQLVAKSI YGVAIAQNQT SAGIIFLSKG 430 440 450 460 470 480 MVSTPGVAAT TYTPQPSAIV TTPGTPVAAP IGKNTPIMFS AVVRRTGDVN AGPGSANGTQ 490 500 510 520 530 540 YGVGSQPLSV TLGLSLTNYS SALQPGQFFV WQLNFASGFM EVGMNTDGYF YAGTGAYSGM 550 560 570 IDLTDLIDVR PVGVRPNTST LVFNLAGVAT TGYSYV

References

[1]	"European brown hare syndrome virus: molecular cloning and sequencing of the genome." Le Gall G., Huguet S., Vende P., Vautherot J.-F., Rasschaert D. J. Gen. Virol. 77:1693-1697(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z69620 Genomic RNA. Translation: CAA93445.1. Z32526 Genomic RNA. No translation available.
RefSeq	NP_068828.1. NC_002615.1.
3D structure databases
ProteinModelPortal	Q96725.
SMR	Q96725. Positions 1249-1745.
ModBase	Search...
Protein family/group databases
MEROPS	C24.001.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
InterPro	IPR003593. AAA+_ATPase. IPR004005. Calicivirus_coat. IPR004004. Helic/Pol/Pept_Calicivir-typ. IPR000605. Helicase_SF3_ssDNA/RNA_vir. IPR014759. Helicase_SF3_ssRNA_vir. IPR000317. Peptidase_C24. IPR001205. RNA-dir_pol_C. IPR007094. RNA-dir_pol_PSvirus. IPR009003. Trypsin-like_Pept_dom. [Graphical view]
Pfam	PF00915. Calici_coat. 1 hit. PF03510. Peptidase_C24. 1 hit. PF00680. RdRP_1. 1 hit. PF00910. RNA_helicase. 1 hit. [Graphical view]
PRINTS	PR00916. 2CENDOPTASE. PR00918. CALICVIRUSNS.
SMART	SM00382. AAA. 1 hit. [Graphical view]
SUPFAM	SSF50494. Pept_Ser_Cys. 1 hit.
PROSITE	PS50507. RDRP_SSRNA_POS. 1 hit. PS51218. SF3_HELICASE_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

POLG_EBHSG

Accession

Primary (citable) accession number: Q96725

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 29, 2005
Last sequence update:	February 1, 1997
Last modified:	May 1, 2013
This is version 78 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program