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Q672I1

- POLG_SVSAP

UniProt

Q672I1 - POLG_SVSAP

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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: 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.
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 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).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei68 – 692Cleavage; by Pro-Pol By similarity
Sitei324 – 3252Cleavage; by Pro-Pol By similarity
Sitei665 – 6662Cleavage; by Pro-Pol By similarity
Sitei939 – 9402Cleavage; by Pro-Pol By similarity
Sitei1053 – 10542Cleavage; by Pro-Pol By similarity
Active sitei1084 – 10841For protease activity By similarity
Active sitei1105 – 11051For protease activity By similarity
Active sitei1169 – 11691For protease activity By similarity
Sitei1721 – 17222Cleavage; by Pro-Pol By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi480 – 4878ATP Reviewed prediction

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. RNA binding Source: InterPro
  3. RNA helicase activity Source: InterPro
  4. RNA-directed RNA polymerase activity Source: UniProtKB-KW
  5. cysteine-type endopeptidase activity Source: InterPro

GO - Biological processi

  1. DNA replication Source: UniProtKB-KW
  2. RNA-protein covalent cross-linking Source: UniProtKB-KW
  3. transcription, DNA-templated Source: InterPro
  4. viral RNA genome replication Source: InterPro
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 positive-strand viruses, no DNA stageCaliciviridaeSapovirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
ProteomesiUP000007049: Genome

Subcellular locationi

GO - Cellular componenti

  1. host cell cytoplasm Source: UniProtKB-SubCell
  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 – 22802280Genome polyprotein
PRO_0000342108Add
BLAST
Chaini1 – 6868Protein p11
PRO_0000342109Add
BLAST
Chaini69 – 324256Protein p28
PRO_0000342110Add
BLAST
Chaini325 – 665341NTPase
PRO_0000342111Add
BLAST
Chaini666 – 939274Protein p32
PRO_0000342112Add
BLAST
Chaini940 – 1053114Viral genome-linked protein
PRO_0000342113Add
BLAST
Chaini1054 – 1721668Protease-polymerase p70
PRO_0000342114Add
BLAST
Chaini1722 – 2280559Capsid protein
PRO_0000342115Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei965 – 9651O-(5'-phospho-RNA)-tyrosine By similarity

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.

Keywords - PTMi

Covalent protein-RNA linkage, Phosphoprotein

Interactioni

Subunit structurei

Capsid protein homodimerizes, then multimerizes By similarity.

Structurei

3D structure databases

ProteinModelPortaliQ672I1.
SMRiQ672I1. Positions 1207-1705.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini454 – 608155SF3 helicase
Add
BLAST
Domaini1069 – 1175107Peptidase C24
Add
BLAST
Domaini1442 – 1567126RdRp catalytic
Add
BLAST

Domaini

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

Sequence similaritiesi

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.
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.
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. Align

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

MVSKPFKPIV LNATFEWQVF KRCYLRVAPR EAFCENLSEL HHYFARRVNA     50
WLKHATRTLP DGYTFVEEGL LDMFGTKAPD SVQEGTLFRE LFGVDQTEQF 100
PLSLADLAKL QGELVDATRT PGHALRQKYT MTTIQDLINK ITKVVPVQAT 150
LTEMHARRQF ERERADLFHE LPLVDEDAVS QPKTYFYTMW RQVVKKGKAY 200
FCPLVKTSAW RTKISAITEP IKDFLIAFCQ AVQQEMGVNP QYLQLAWLQK 250
LKPTTLTIIL QQHKYTVSGW LATMTALVEV YSNLFDDLRK SSVAIVSSIG 300
AFFDICKDFV SQVVELVKTT FTAQGPTDLG WAAVLAGAAM ILLKMSGCPG 350
VIGMWTKVLK ICGGITTITA AARGVRWLKD LYEEAEGRRL AKMYMARGAA 400
LIELAASREV TGIDELKGLL DCFTILIEEG TELIHKFGTS PLAGLVRTYV 450
SELETQANNI RSTIKLDTPR RVPVVIILTG APGIGKTRLA QYVGQRFGKT 500
SNFSVAVDHH DGYTGNTVCI WDEFDVDSKG AFVETMIGIA NTAPFPLNCD 550
RVENKGRVFT SDYVICTSNY PTSVIPDNPR AAAFYRRVLT VDVSAPDLEE 600
WKKRNPGKRP TPDLYQDDFS HLKLMLRPYL GYNPDGDTLE GPRVAPTQIS 650
IAGLITLMER RFKEQAGPLQ NLWLQVPKTL VEQSTNMVKA FMYANRAVCD 700
VIPNPATRDI AETALTKIFV CGTAPPPEFV GKHIVITGIE VGDASIANSL 750
LSMFTTTTRL SAAAQREYMY RVWSPLIHIQ DRSINTQNLP YINRVIPVTS 800
HWDFLRGLRH HLGFTSIPGM WKAFQGWRTS QGIVDFVAHH MADVTFPSNP 850
ECTIFRTPDA DVVFYTFGSY VCFATPARVP YVGTPPTTIH SNTPRCMTWG 900
ETIALLCEVV AEFVLHFGPV ILSAANIAYL MTRGSRTEEA KGKTKHGRGM 950
RHGHRAGVSL SDDEYDEWRD LMRDWRRDMS VNDFLMLRER SALGVDDEDE 1000
ARYRAWLEIR AMRMAGGAYT HATIIGRGGV RDEIIRTAPR RAPTRPQQHY 1050
EEEAPTAIVE FTQGGDHIGY GVHIGNGNVI TVTHVASTSD EVNGSAFKIT 1100
RTVGETTWVQ GPFSQLPHMQ IGSGSPVYFT TRLHPVFTIS EGTFETPNIT 1150
VNGFHVRIMN GYPTKKGDCG LPYFNSNRQL VALHAGTDTQ GETKVAQRVV 1200
KEVTTQDEFQ WKGLPVVKSG LDVGGMPTGT RYHRSPAWPE EQPGETHAPA 1250
PFGAGDKRYT FSQTEMLVNG LKPYTEPTAG VPPQLLSRAV THVRSYIETI 1300
IGTHRSPVLT YHQACELLER TTSCGPFVQG LKGDYWDEEQ QQYTGVLANH 1350
LEQAWDKANK GIAPRNAYKL ALKDELRPIE KNKAGKRRLL WGCDAATTLI 1400
ATAAFKAVAT RLQVVTPMTP VAVGINMDSV QMQVMNDSLK GGVLYCLDYS 1450
KWDSTQNPAV TAASLAILER FAEPHPIVSC AIEALSSPAE GYVNDIKFVT 1500
RGGLPSGMPF TSVVNSINHM IYVAAAILQA YESHNVPYTG NVFQVETVHT 1550
YGDDCMYSVC PATASIFHAV LANLTSYGLK PTAADKSDAI KPTNTPVFLK 1600
RTFTQTPHGV RALLDITSIT RQFYWLKANR TSDPSSPPAF DRQARSAQLE 1650
NALAYASQHG PVVFDTVRQI AIKTAQGEGL VLVNTNYDQA LATYNAWFIG 1700
GTVPDPVGHT EGTHKIVFEM EGNGSNPEPK QSNNPMVVDP PGTTGPTTSH 1750
VVVANPEQPN GAAQRLELAV ATGAIQSNVP EAIRNCFAVF RTFAWNDRMP 1800
TGTFLGSISL HPNINPYTAH LSGMWAGWGG SFEVRLSISG SGVFAGRIIA 1850
SVIPPGVDPS SIRDPGVLPH AFVDARITEP VSFMIPDVRA VDYHRMDGAE 1900
PTCSLGFWVY QPLLNPFSTT AVSTCWVSVE TKPGGDFDFC LLRPPGQQME 1950
NGVSPEGLLP RRLGYSRGNR VGGLVVGMVL VAEHKQVNRH FNSNSVTFGW 2000
STAPVNPMAA EIVTNQAHST SRHAWLSIGA QNKGPLFPGI PNHFPDSCAS 2050
TIVGAMDTSL GGRPSTGVCG PAISFQNNGD VYENDTPSVM FATYDPLTSG 2100
TGVALTNSIN PASLALVRIS NNDFDTSGFA NDKNVVVQMS WEMYTGTNQI 2150
RGQVTPMSGT NYTFTSTGAN TLVLWQERML SYDGHQAILY SSQLERTAEY 2200
FQNDIVNIPE NSMAVFNVET NSASFQIGIR PDGYMVTGGS IGINVPLEPE 2250
TRFQYVGILP LSAALSGPSG NMGRARRVFQ 2280

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)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 17191719Missing in isoform Subgenomic capsid protein.
VSP_034391Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AY694184 Genomic RNA. Translation: AAU09265.2.
RefSeqiYP_077278.1. NC_006269.1. [Q672I1-1]

Genome annotation databases

GeneIDi5176815.

Keywords - Coding sequence diversityi

Alternative initiation, Alternative promoter usage

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AY694184 Genomic RNA. Translation: AAU09265.2 .
RefSeqi YP_077278.1. NC_006269.1. [Q672I1-1 ]

3D structure databases

ProteinModelPortali Q672I1.
SMRi Q672I1. Positions 1207-1705.
ModBasei Search...
MobiDBi Search...

Protein family/group databases

MEROPSi C24.003.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 5176815.

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.
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.
IPR029053. Viral_coat.
[Graphical view ]
Pfami PF00915. 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 ]
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. "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].

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: July 9, 2014
This is version 61 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.

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

Similar proteinsi