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Protein

Genome polyprotein

Gene
N/A
Organism
Sapporo virus (isolate GI/Human/Germany/pJG-Sap01) (Hu/Dresden/pJG-Sap01/DE)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Protein inferred from homologyi

Functioni

NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity (By similarity).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
Protease-polymerase p70 processes the polyprotein: Pro-Pol is first released by autocleavage, then all other proteins are cleaved (By similarity). It is also an RNA-directed RNA polymerase which replicates genomic and antigenomic viral RNA by recognizing specific signals. Catalyzes the covalent attachment VPg with viral RNAs (By similarity).By similarity
Capsid protein self assembles to form an icosahedral capsid with a T=3 symmetry, about 38 nm in diameter, and consisting of 180 capsid proteins. The capsid encapsulate the genomic RNA and VP2 proteins. 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)DescriptionActionsGraphical viewLength
Active sitei1084For protease activityBy similarity1
Active sitei1105For protease activityBy similarity1
Active sitei1169For protease activityBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi480 – 487ATPPROSITE-ProRule annotation8

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Thiol protease, Transferase

Keywords - Biological processi

DNA replication, Viral RNA replication

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Protein family/group databases

MEROPSiC24.003.

Names & Taxonomyi

Protein namesi
Recommended name:
Genome polyprotein
Cleaved into the following 7 chains:
Alternative name(s):
p35
Alternative name(s):
VPg
p14
Protease-polymerase p70 (EC:2.7.7.48, EC:3.4.22.66)
Short name:
Pro-Pol
Capsid protein
Short name:
CP
Alternative name(s):
VP1
p60
OrganismiSapporo virus (isolate GI/Human/Germany/pJG-Sap01) (Hu/Dresden/pJG-Sap01/DE)
Taxonomic identifieri291175 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stageCaliciviridaeSapovirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Proteomesi
  • UP000007049 Componenti: Genome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, Host cytoplasm, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003421081 – 2280Genome polyproteinAdd BLAST2280
ChainiPRO_00003421091 – 68Protein p11Add BLAST68
ChainiPRO_000034211069 – 324Protein p28Add BLAST256
ChainiPRO_0000342111325 – 665NTPaseAdd BLAST341
ChainiPRO_0000342112666 – 939Protein p32Add BLAST274
ChainiPRO_0000342113940 – 1053Viral genome-linked proteinAdd BLAST114
ChainiPRO_00003421141054 – 1721Protease-polymerase p70Add BLAST668
ChainiPRO_00003421151722 – 2280Capsid proteinAdd BLAST559

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei965O-(5'-phospho-RNA)-tyrosineBy similarity1

Post-translational modificationi

Specific enzymatic cleavages in vivo yield mature proteins. Pro-Pol is first autocatalytically cleaved, then processes the whole polyprotein.
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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei68 – 69Cleavage; by Pro-PolBy similarity2
Sitei324 – 325Cleavage; by Pro-PolBy similarity2
Sitei665 – 666Cleavage; by Pro-PolBy similarity2
Sitei939 – 940Cleavage; by Pro-PolBy similarity2
Sitei1053 – 1054Cleavage; by Pro-PolBy similarity2
Sitei1721 – 1722Cleavage; by Pro-PolBy similarity2

Keywords - PTMi

Covalent protein-RNA linkage, Phosphoprotein

Interactioni

Subunit structurei

Capsid protein homodimerizes, then multimerizes.By similarity

Structurei

3D structure databases

ProteinModelPortaliQ672I1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini454 – 608SF3 helicasePROSITE-ProRule annotationAdd BLAST155
Domaini1069 – 1175Peptidase C24Add BLAST107
Domaini1442 – 1567RdRp catalyticPROSITE-ProRule annotationAdd BLAST126

Domaini

Protease-polymerase is composed of two domains displaying two different catalytic activity. These activities may act independently.

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

CDDicd00205. rhv_like. 1 hit.
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.
IPR001665. Norovirus_pept_C37.
IPR027417. P-loop_NTPase.
IPR000317. Peptidase_C24.
IPR009003. Peptidase_S1_PA.
IPR033703. Rhv-like.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR029053. Viral_coat.
[Graphical view]
PfamiPF00915. Calici_coat. 1 hit.
PF03510. Peptidase_C24. 1 hit.
PF05416. Peptidase_C37. 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]

Sequences (3)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 3 isoformsi produced by alternative promoter usage. AlignAdd to basket

Isoform Genome polyprotein (identifier: Q672I1-1) [UniParc]FASTAAdd to basket

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.

« Hide

        10         20         30         40         50
MVSKPFKPIV LNATFEWQVF KRCYLRVAPR EAFCENLSEL HHYFARRVNA
60 70 80 90 100
WLKHATRTLP DGYTFVEEGL LDMFGTKAPD SVQEGTLFRE LFGVDQTEQF
110 120 130 140 150
PLSLADLAKL QGELVDATRT PGHALRQKYT MTTIQDLINK ITKVVPVQAT
160 170 180 190 200
LTEMHARRQF ERERADLFHE LPLVDEDAVS QPKTYFYTMW RQVVKKGKAY
210 220 230 240 250
FCPLVKTSAW RTKISAITEP IKDFLIAFCQ AVQQEMGVNP QYLQLAWLQK
260 270 280 290 300
LKPTTLTIIL QQHKYTVSGW LATMTALVEV YSNLFDDLRK SSVAIVSSIG
310 320 330 340 350
AFFDICKDFV SQVVELVKTT FTAQGPTDLG WAAVLAGAAM ILLKMSGCPG
360 370 380 390 400
VIGMWTKVLK ICGGITTITA AARGVRWLKD LYEEAEGRRL AKMYMARGAA
410 420 430 440 450
LIELAASREV TGIDELKGLL DCFTILIEEG TELIHKFGTS PLAGLVRTYV
460 470 480 490 500
SELETQANNI RSTIKLDTPR RVPVVIILTG APGIGKTRLA QYVGQRFGKT
510 520 530 540 550
SNFSVAVDHH DGYTGNTVCI WDEFDVDSKG AFVETMIGIA NTAPFPLNCD
560 570 580 590 600
RVENKGRVFT SDYVICTSNY PTSVIPDNPR AAAFYRRVLT VDVSAPDLEE
610 620 630 640 650
WKKRNPGKRP TPDLYQDDFS HLKLMLRPYL GYNPDGDTLE GPRVAPTQIS
660 670 680 690 700
IAGLITLMER RFKEQAGPLQ NLWLQVPKTL VEQSTNMVKA FMYANRAVCD
710 720 730 740 750
VIPNPATRDI AETALTKIFV CGTAPPPEFV GKHIVITGIE VGDASIANSL
760 770 780 790 800
LSMFTTTTRL SAAAQREYMY RVWSPLIHIQ DRSINTQNLP YINRVIPVTS
810 820 830 840 850
HWDFLRGLRH HLGFTSIPGM WKAFQGWRTS QGIVDFVAHH MADVTFPSNP
860 870 880 890 900
ECTIFRTPDA DVVFYTFGSY VCFATPARVP YVGTPPTTIH SNTPRCMTWG
910 920 930 940 950
ETIALLCEVV AEFVLHFGPV ILSAANIAYL MTRGSRTEEA KGKTKHGRGM
960 970 980 990 1000
RHGHRAGVSL SDDEYDEWRD LMRDWRRDMS VNDFLMLRER SALGVDDEDE
1010 1020 1030 1040 1050
ARYRAWLEIR AMRMAGGAYT HATIIGRGGV RDEIIRTAPR RAPTRPQQHY
1060 1070 1080 1090 1100
EEEAPTAIVE FTQGGDHIGY GVHIGNGNVI TVTHVASTSD EVNGSAFKIT
1110 1120 1130 1140 1150
RTVGETTWVQ GPFSQLPHMQ IGSGSPVYFT TRLHPVFTIS EGTFETPNIT
1160 1170 1180 1190 1200
VNGFHVRIMN GYPTKKGDCG LPYFNSNRQL VALHAGTDTQ GETKVAQRVV
1210 1220 1230 1240 1250
KEVTTQDEFQ WKGLPVVKSG LDVGGMPTGT RYHRSPAWPE EQPGETHAPA
1260 1270 1280 1290 1300
PFGAGDKRYT FSQTEMLVNG LKPYTEPTAG VPPQLLSRAV THVRSYIETI
1310 1320 1330 1340 1350
IGTHRSPVLT YHQACELLER TTSCGPFVQG LKGDYWDEEQ QQYTGVLANH
1360 1370 1380 1390 1400
LEQAWDKANK GIAPRNAYKL ALKDELRPIE KNKAGKRRLL WGCDAATTLI
1410 1420 1430 1440 1450
ATAAFKAVAT RLQVVTPMTP VAVGINMDSV QMQVMNDSLK GGVLYCLDYS
1460 1470 1480 1490 1500
KWDSTQNPAV TAASLAILER FAEPHPIVSC AIEALSSPAE GYVNDIKFVT
1510 1520 1530 1540 1550
RGGLPSGMPF TSVVNSINHM IYVAAAILQA YESHNVPYTG NVFQVETVHT
1560 1570 1580 1590 1600
YGDDCMYSVC PATASIFHAV LANLTSYGLK PTAADKSDAI KPTNTPVFLK
1610 1620 1630 1640 1650
RTFTQTPHGV RALLDITSIT RQFYWLKANR TSDPSSPPAF DRQARSAQLE
1660 1670 1680 1690 1700
NALAYASQHG PVVFDTVRQI AIKTAQGEGL VLVNTNYDQA LATYNAWFIG
1710 1720 1730 1740 1750
GTVPDPVGHT EGTHKIVFEM EGNGSNPEPK QSNNPMVVDP PGTTGPTTSH
1760 1770 1780 1790 1800
VVVANPEQPN GAAQRLELAV ATGAIQSNVP EAIRNCFAVF RTFAWNDRMP
1810 1820 1830 1840 1850
TGTFLGSISL HPNINPYTAH LSGMWAGWGG SFEVRLSISG SGVFAGRIIA
1860 1870 1880 1890 1900
SVIPPGVDPS SIRDPGVLPH AFVDARITEP VSFMIPDVRA VDYHRMDGAE
1910 1920 1930 1940 1950
PTCSLGFWVY QPLLNPFSTT AVSTCWVSVE TKPGGDFDFC LLRPPGQQME
1960 1970 1980 1990 2000
NGVSPEGLLP RRLGYSRGNR VGGLVVGMVL VAEHKQVNRH FNSNSVTFGW
2010 2020 2030 2040 2050
STAPVNPMAA EIVTNQAHST SRHAWLSIGA QNKGPLFPGI PNHFPDSCAS
2060 2070 2080 2090 2100
TIVGAMDTSL GGRPSTGVCG PAISFQNNGD VYENDTPSVM FATYDPLTSG
2110 2120 2130 2140 2150
TGVALTNSIN PASLALVRIS NNDFDTSGFA NDKNVVVQMS WEMYTGTNQI
2160 2170 2180 2190 2200
RGQVTPMSGT NYTFTSTGAN TLVLWQERML SYDGHQAILY SSQLERTAEY
2210 2220 2230 2240 2250
FQNDIVNIPE NSMAVFNVET NSASFQIGIR PDGYMVTGGS IGINVPLEPE
2260 2270 2280
TRFQYVGILP LSAALSGPSG NMGRARRVFQ
Note: Produced from the genomic RNA.
Length:2,280
Mass (Da):251,007
Last modified:October 11, 2004 - v1
Checksum:i2402A87ACE40873F
GO
Isoform Subgenomic capsid protein (identifier: Q672I1-2) [UniParc]FASTAAdd to basket
Also known as: VP1

The sequence of this isoform differs from the canonical sequence as follows:
     1-1719: Missing.

Note: Produced from the subgenomic RNA.
Show »
Length:561
Mass (Da):60,113
Checksum:i5B6C8A3ED75E4E3C
GO
Isoform Uncharacterized protein VP3 (identifier: Q672I0-1) [UniParc]FASTAAdd to basket
The sequence of this isoform can be found in the external entry Q672I0.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by alternative initiation from the subgenomic RNA.
Length:161
Mass (Da):17,553
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0343911 – 1719Missing in isoform Subgenomic capsid protein. CuratedAdd BLAST1719

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY694184 Genomic RNA. Translation: AAU09265.2.
RefSeqiYP_077278.1. NC_006269.1. [Q672I1-1]

Genome annotation databases

GeneIDi5176815.
KEGGivg:5176815.

Keywords - Coding sequence diversityi

Alternative initiation, Alternative promoter usage

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY694184 Genomic RNA. Translation: AAU09265.2.
RefSeqiYP_077278.1. NC_006269.1. [Q672I1-1]

3D structure databases

ProteinModelPortaliQ672I1.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiC24.003.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi5176815.
KEGGivg:5176815.

Family and domain databases

CDDicd00205. rhv_like. 1 hit.
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.
IPR001665. Norovirus_pept_C37.
IPR027417. P-loop_NTPase.
IPR000317. Peptidase_C24.
IPR009003. Peptidase_S1_PA.
IPR033703. Rhv-like.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR029053. Viral_coat.
[Graphical view]
PfamiPF00915. Calici_coat. 1 hit.
PF03510. Peptidase_C24. 1 hit.
PF05416. Peptidase_C37. 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]
ProtoNetiSearch...

Entry informationi

Entry nameiPOLG_SVSAP
AccessioniPrimary (citable) accession number: Q672I1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: October 11, 2004
Last modified: November 30, 2016
This is version 71 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

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).By similarity

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.