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Q672I1 (POLG_SVSAP) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 58. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Genome polyprotein

Cleaved into the following 7 chains:

  1. Protein p11
  2. Protein p28
  3. NTPase
    EC=3.6.1.15
    Alternative name(s):
    p35
  4. Protein p32
  5. Viral genome-linked protein
    Alternative name(s):
    VPg
    p14
  6. Protease-polymerase p70
    Short name=Pro-Pol
    EC=2.7.7.48
    EC=3.4.22.66
  7. Capsid protein
    Short name=CP
    Alternative name(s):
    VP1
    p60
OrganismSapporo virus (isolate GI/Human/Germany/pJG-Sap01) (Hu/Dresden/pJG-Sap01/DE) [Reference proteome]
Taxonomic identifier291175 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeSapovirus
Virus hostHomo sapiens (Human) [TaxID: 9606]

Protein attributes

Sequence length2280 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceInferred from homology

General annotation (Comments)

Function

NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity 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.

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.

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.

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

Capsid protein homodimerizes, then multimerizes By similarity.

Subcellular location

Capsid protein: Virion. Host cytoplasm.

Domain

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

Post-translational modification

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.

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 processDNA replication
Viral RNA replication
   Cellular componentCapsid protein
Host cytoplasm
Virion
   Coding sequence diversityAlternative initiation
Alternative promoter usage
   LigandATP-binding
Nucleotide-binding
   Molecular functionHydrolase
Nucleotidyltransferase
Protease
RNA-directed RNA polymerase
Thiol protease
Transferase
   PTMCovalent protein-RNA linkage
Phosphoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processDNA replication

Inferred from electronic annotation. Source: UniProtKB-KW

RNA-protein covalent cross-linking

Inferred from electronic annotation. Source: UniProtKB-KW

proteolysis

Inferred from electronic annotation. Source: UniProtKB-KW

transcription, DNA-templated

Inferred from electronic annotation. Source: InterPro

viral RNA genome replication

Inferred from electronic annotation. Source: InterPro

   Cellular_componenthost cell cytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

viral capsid

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular_functionATP 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 3 isoforms produced by alternative promoter usage. [Align] [Select]
Isoform Genome polyprotein (identifier: Q672I1-1)

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 (identifier: Q672I1-2)

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.
Isoform Uncharacterized protein VP3 (identifier: Q672I0-1)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 22802280Genome polyprotein
PRO_0000342108
Chain1 – 6868Protein p11
PRO_0000342109
Chain69 – 324256Protein p28
PRO_0000342110
Chain325 – 665341NTPase
PRO_0000342111
Chain666 – 939274Protein p32
PRO_0000342112
Chain940 – 1053114Viral genome-linked protein
PRO_0000342113
Chain1054 – 1721668Protease-polymerase p70
PRO_0000342114
Chain1722 – 2280559Capsid protein
PRO_0000342115

Regions

Domain454 – 608155SF3 helicase
Domain1069 – 1175107Peptidase C24
Domain1442 – 1567126RdRp catalytic
Nucleotide binding480 – 4878ATP Potential

Sites

Active site10841For protease activity By similarity
Active site11051For protease activity By similarity
Active site11691For protease activity By similarity
Site68 – 692Cleavage; by Pro-Pol By similarity
Site324 – 3252Cleavage; by Pro-Pol By similarity
Site665 – 6662Cleavage; by Pro-Pol By similarity
Site939 – 9402Cleavage; by Pro-Pol By similarity
Site1053 – 10542Cleavage; by Pro-Pol By similarity
Site1721 – 17222Cleavage; by Pro-Pol By similarity

Amino acid modifications

Modified residue9651O-(5'-phospho-RNA)-tyrosine By similarity

Natural variations

Alternative sequence1 – 17191719Missing in isoform Subgenomic capsid protein.
VSP_034391

Sequences

Sequence LengthMass (Da)Tools
Isoform Genome polyprotein [UniParc].

Last modified October 11, 2004. Version 1.
Checksum: 2402A87ACE40873F

FASTA2,280251,007
        10         20         30         40         50         60 
MVSKPFKPIV LNATFEWQVF KRCYLRVAPR EAFCENLSEL HHYFARRVNA WLKHATRTLP 

        70         80         90        100        110        120 
DGYTFVEEGL LDMFGTKAPD SVQEGTLFRE LFGVDQTEQF PLSLADLAKL QGELVDATRT 

       130        140        150        160        170        180 
PGHALRQKYT MTTIQDLINK ITKVVPVQAT LTEMHARRQF ERERADLFHE LPLVDEDAVS 

       190        200        210        220        230        240 
QPKTYFYTMW RQVVKKGKAY FCPLVKTSAW RTKISAITEP IKDFLIAFCQ AVQQEMGVNP 

       250        260        270        280        290        300 
QYLQLAWLQK LKPTTLTIIL QQHKYTVSGW LATMTALVEV YSNLFDDLRK SSVAIVSSIG 

       310        320        330        340        350        360 
AFFDICKDFV SQVVELVKTT FTAQGPTDLG WAAVLAGAAM ILLKMSGCPG VIGMWTKVLK 

       370        380        390        400        410        420 
ICGGITTITA AARGVRWLKD LYEEAEGRRL AKMYMARGAA LIELAASREV TGIDELKGLL 

       430        440        450        460        470        480 
DCFTILIEEG TELIHKFGTS PLAGLVRTYV SELETQANNI RSTIKLDTPR RVPVVIILTG 

       490        500        510        520        530        540 
APGIGKTRLA QYVGQRFGKT SNFSVAVDHH DGYTGNTVCI WDEFDVDSKG AFVETMIGIA 

       550        560        570        580        590        600 
NTAPFPLNCD RVENKGRVFT SDYVICTSNY PTSVIPDNPR AAAFYRRVLT VDVSAPDLEE 

       610        620        630        640        650        660 
WKKRNPGKRP TPDLYQDDFS HLKLMLRPYL GYNPDGDTLE GPRVAPTQIS IAGLITLMER 

       670        680        690        700        710        720 
RFKEQAGPLQ NLWLQVPKTL VEQSTNMVKA FMYANRAVCD VIPNPATRDI AETALTKIFV 

       730        740        750        760        770        780 
CGTAPPPEFV GKHIVITGIE VGDASIANSL LSMFTTTTRL SAAAQREYMY RVWSPLIHIQ 

       790        800        810        820        830        840 
DRSINTQNLP YINRVIPVTS HWDFLRGLRH HLGFTSIPGM WKAFQGWRTS QGIVDFVAHH 

       850        860        870        880        890        900 
MADVTFPSNP ECTIFRTPDA DVVFYTFGSY VCFATPARVP YVGTPPTTIH SNTPRCMTWG 

       910        920        930        940        950        960 
ETIALLCEVV AEFVLHFGPV ILSAANIAYL MTRGSRTEEA KGKTKHGRGM RHGHRAGVSL 

       970        980        990       1000       1010       1020 
SDDEYDEWRD LMRDWRRDMS VNDFLMLRER SALGVDDEDE ARYRAWLEIR AMRMAGGAYT 

      1030       1040       1050       1060       1070       1080 
HATIIGRGGV RDEIIRTAPR RAPTRPQQHY EEEAPTAIVE FTQGGDHIGY GVHIGNGNVI 

      1090       1100       1110       1120       1130       1140 
TVTHVASTSD EVNGSAFKIT RTVGETTWVQ GPFSQLPHMQ IGSGSPVYFT TRLHPVFTIS 

      1150       1160       1170       1180       1190       1200 
EGTFETPNIT VNGFHVRIMN GYPTKKGDCG LPYFNSNRQL VALHAGTDTQ GETKVAQRVV 

      1210       1220       1230       1240       1250       1260 
KEVTTQDEFQ WKGLPVVKSG LDVGGMPTGT RYHRSPAWPE EQPGETHAPA PFGAGDKRYT 

      1270       1280       1290       1300       1310       1320 
FSQTEMLVNG LKPYTEPTAG VPPQLLSRAV THVRSYIETI IGTHRSPVLT YHQACELLER 

      1330       1340       1350       1360       1370       1380 
TTSCGPFVQG LKGDYWDEEQ QQYTGVLANH LEQAWDKANK GIAPRNAYKL ALKDELRPIE 

      1390       1400       1410       1420       1430       1440 
KNKAGKRRLL WGCDAATTLI ATAAFKAVAT RLQVVTPMTP VAVGINMDSV QMQVMNDSLK 

      1450       1460       1470       1480       1490       1500 
GGVLYCLDYS KWDSTQNPAV TAASLAILER FAEPHPIVSC AIEALSSPAE GYVNDIKFVT 

      1510       1520       1530       1540       1550       1560 
RGGLPSGMPF TSVVNSINHM IYVAAAILQA YESHNVPYTG NVFQVETVHT YGDDCMYSVC 

      1570       1580       1590       1600       1610       1620 
PATASIFHAV LANLTSYGLK PTAADKSDAI KPTNTPVFLK RTFTQTPHGV RALLDITSIT 

      1630       1640       1650       1660       1670       1680 
RQFYWLKANR TSDPSSPPAF DRQARSAQLE NALAYASQHG PVVFDTVRQI AIKTAQGEGL 

      1690       1700       1710       1720       1730       1740 
VLVNTNYDQA LATYNAWFIG GTVPDPVGHT EGTHKIVFEM EGNGSNPEPK QSNNPMVVDP 

      1750       1760       1770       1780       1790       1800 
PGTTGPTTSH VVVANPEQPN GAAQRLELAV ATGAIQSNVP EAIRNCFAVF RTFAWNDRMP 

      1810       1820       1830       1840       1850       1860 
TGTFLGSISL HPNINPYTAH LSGMWAGWGG SFEVRLSISG SGVFAGRIIA SVIPPGVDPS 

      1870       1880       1890       1900       1910       1920 
SIRDPGVLPH AFVDARITEP VSFMIPDVRA VDYHRMDGAE PTCSLGFWVY QPLLNPFSTT 

      1930       1940       1950       1960       1970       1980 
AVSTCWVSVE TKPGGDFDFC LLRPPGQQME NGVSPEGLLP RRLGYSRGNR VGGLVVGMVL 

      1990       2000       2010       2020       2030       2040 
VAEHKQVNRH FNSNSVTFGW STAPVNPMAA EIVTNQAHST SRHAWLSIGA QNKGPLFPGI 

      2050       2060       2070       2080       2090       2100 
PNHFPDSCAS TIVGAMDTSL GGRPSTGVCG PAISFQNNGD VYENDTPSVM FATYDPLTSG 

      2110       2120       2130       2140       2150       2160 
TGVALTNSIN PASLALVRIS NNDFDTSGFA NDKNVVVQMS WEMYTGTNQI RGQVTPMSGT 

      2170       2180       2190       2200       2210       2220 
NYTFTSTGAN TLVLWQERML SYDGHQAILY SSQLERTAEY FQNDIVNIPE NSMAVFNVET 

      2230       2240       2250       2260       2270       2280 
NSASFQIGIR PDGYMVTGGS IGINVPLEPE TRFQYVGILP LSAALSGPSG NMGRARRVFQ 

« Hide

Isoform Subgenomic capsid protein (VP1) [UniParc].

Checksum: 5B6C8A3ED75E4E3C
Show »

FASTA56160,113
Isoform Uncharacterized protein VP3 [UniParc].

See Q672I0.

References

[1]"Structural and functional characterization of sapovirus RNA-dependent RNA polymerase."
Fullerton S.W., Blaschke M., Coutard B., Gebhardt J., Gorbalenya A., Canard B., Tucker P.A., Rohayem J.
J. Virol. 81:1858-1871(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AY694184 Genomic RNA. Translation: AAU09265.2.
RefSeqYP_077278.1. NC_006269.1.

3D structure databases

ProteinModelPortalQ672I1.
SMRQ672I1. Positions 1207-1705.
ModBaseSearch...
MobiDBSearch...

Protein family/group databases

MEROPSC24.003.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID5176815.

Family and domain databases

Gene3D3.40.50.300. 1 hit.
InterProIPR004005. 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.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009003. Trypsin-like_Pept_dom.
[Graphical view]
PfamPF00915. 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]
PRINTSPR00916. 2CENDOPTASE.
PR00918. CALICVIRUSNS.
SUPFAMSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEPS50507. RDRP_SSRNA_POS. 1 hit.
PS51218. SF3_HELICASE_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry namePOLG_SVSAP
AccessionPrimary (citable) accession number: Q672I1
Entry history
Integrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: October 11, 2004
Last modified: April 16, 2014
This is version 58 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Peptidase families

Classification of peptidase families and list of entries