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P27409

- POLG_FCVF9

UniProt

P27409 - POLG_FCVF9

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Protein

Genome polyprotein

Gene
ORF1
Organism
Feline calicivirus (strain F9) (FCV)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

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 p76 processes the polyprotein: Pro-Pol is first released by autocleavage, then all other proteins are cleaved. Cleaves host translation initiation factor eIF4G1, eIF4G2 and PABP1 thereby inducing a shutdown of host protein synthesis. This shutdown may not prevent viral mRNA from being translated since viral Vpg replaces the cap. May cleave host polyadenylate-binding protein thereby inhibiting cellular translation. It is also an RNA-directed RNA polymerase which replicates genomic and antigenomic viral RNA by recognizing 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.

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
Sitei46 – 472Cleavage; by Pro-Pol By similarity
Sitei331 – 3322Cleavage; by Pro-Pol By similarity
Sitei685 – 6862Cleavage; by Pro-Pol By similarity
Sitei960 – 9612Cleavage; by Pro-Pol By similarity
Sitei1071 – 10722Cleavage; by Pro-Pol By similarity
Active sitei1110 – 11101For protease activity By similarity
Active sitei1131 – 11311For protease activity By similarity
Active sitei1193 – 11931For protease activity By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi484 – 4918ATP Reviewed prediction

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. suppression by virus of host translation 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

Eukaryotic host gene expression shutoff by virus, Eukaryotic host translation shutoff by virus, Host gene expression shutoff by virus, Host-virus interaction, Viral RNA replication

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Genome polyprotein
Cleaved into the following 6 chains:
Alternative name(s):
p39
Alternative name(s):
VPg
p13
Protease-polymerase p76 (EC:2.7.7.48, EC:3.4.22.66)
Short name:
Pro-Pol
Gene namesi
ORF Names:ORF1
OrganismiFeline calicivirus (strain F9) (FCV)
Taxonomic identifieri11981 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeVesivirus
Virus hostiFelidae (cat family) [TaxID: 9681]
ProteomesiUP000008762: Genome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 17631763Genome polyproteinPRO_0000341997Add
BLAST
Chaini1 – 4646Protein p5.6 By similarityPRO_0000036900Add
BLAST
Chaini47 – 331285Protein p32 By similarityPRO_0000036901Add
BLAST
Chaini332 – 685354NTPase By similarityPRO_0000036902Add
BLAST
Chaini686 – 960275Protein p30 By similarityPRO_0000036903Add
BLAST
Chaini961 – 1071111Viral genome-linked protein By similarityPRO_0000036904Add
BLAST
Chaini1072 – 1763692Protease-polymerase p76 By similarityPRO_0000036905Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei984 – 9841O-(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 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.

Keywords - PTMi

Covalent protein-RNA linkage, Phosphoprotein

Interactioni

Subunit structurei

Protein p32: homodimer, interacts with NTPase, protein p30 and Pro-Pol. Viral genome-linked protein interacts with capsid protein and Pro-Pol. Protease-polymerase p76: Homooligomers, interacts with Vpg, protein p32 and may interact with capsid protein By similarity.

Structurei

Secondary structure

1
1763
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi973 – 9764
Helixi981 – 99313
Helixi1000 – 101213
Helixi1017 – 102913

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2M4HNMR-A970-1036[»]
ProteinModelPortaliP27409.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini458 – 614157SF3 helicaseAdd
BLAST
Domaini1095 – 1199105Peptidase C24Add
BLAST
Domaini1478 – 1603126RdRp catalyticAdd
BLAST

Domaini

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

Sequence similaritiesi

Family and domain databases

Gene3Di3.40.50.300. 3 hits.
InterProiIPR003593. AAA+_ATPase.
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.
[Graphical view]
PfamiPF03510. Peptidase_C24. 1 hit.
PF00680. RdRP_1. 1 hit.
PF00910. RNA_helicase. 1 hit.
[Graphical view]
PRINTSiPR00916. 2CENDOPTASE.
PR00918. CALICVIRUSNS.
SMARTiSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 4 hits.
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.

P27409-1 [UniParc]FASTAAdd to Basket

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MSQTLSFVLK THSVRKDFVH SVKLTLARRR DLQYIYNKLS RTIRAEACPS     50
CASYDVCPNC TSGDVPDDGS STMSIPSWED VTKSSTYSLL LSEDTSDELC 100
PEDLVNVAAH IRKALSTQSH PANAEMCKEQ LTFLLVMAEA MLPQRSRASI 150
PLHQQHTAAR LEWREKFFSK PLDFLLERVG VSKDILQTTA IWKIILEKAC 200
YCKSYGEQWF TAAKQKLREM KNFESDTLKP LIGGFIDGLR FLTVDNPNPM 250
GFLPKLIGLV KPLNLAMIID NHENTISGWI ITLTAIMELY NITECTIDII 300
TSVITAFYDK IGKATKFYSC VKALFTGFRS EDVANSFWYM AAAILCYLIT 350
GLIPNNGRFS KIKACLAGAT TLVSGIVATQ KLAAMFATWN SESIVNELSA 400
RTVALSELNN PTTTSDTDSV ERLLELAKIL HEEIKIHTLN PIMQSYNPIL 450
RNLMSTLDGV ITSCNKRKAI ARKRQVPVCY ILTGPPGCGK TTAAQALAKK 500
LSDQEPSVIN LDVDHHDTYT GNEVCIIDEF DSSDKVDYAN FVIGMVNSAP 550
MVLNCDMLEN KGKLFTSKYI IMTSNSETPV KPSSKRAGAF YRRVTIIDVT 600
NPFVESHKRA RPGTSVPRSC YKKNFSHLSL AKRGAECWCK EYVLDPKGLQ 650
HQSMKAPPPT FLNIDSLAQT MKQDFLLKNM AFEAEDGCAE HRYGFVCQQE 700
EVETVRRLLN AVRARMNATF TVCVGPETSH SIGCTAHVLT PNETFNGKKF 750
VVSRCNEASL SALEGNCVKS ALGVCMSDKD LTHLCHFIKG KIVNDSVRLD 800
ELPANQHVVT VNSVFDLAWA VRRHLTLAGQ FQAIRAAYDV LTVPDKIPAM 850
LRHWMDETSF SDDHVVTQFV TPGGIVILES CGGARIWALG RNVIRAGGVT 900
ATPTGGCVRL MGLSAPTMPW SEIFRELFSL LGRIWSSVKV SALVLTALGM 950
YASRFRPKSE AKGKTKLKIG TYRGRGVALT DDEYDEWREH NASRKLDLSV 1000
EDFLMLRHRA ALGADDNDAV KFRSWWNSRT KMANDYEDVT VIGKGGVKHE 1050
KIRTNTLKAV DRGYDVSFAE ESGPGTKFHK NAIGSVTDVC GEHKGYCIHM 1100
GHGVYASVAH VVKGDSFFLG ERIFDLKTNG EFCCFRSTKI LPSAAPFFSG 1150
KPTRDPWGSP VATEWKPKMY TTTSGKILGC FATTSTETHP GDCGLPYIDD 1200
NGRVTGLHTG SGGPKTPSAK LVVPYVHIDM KTKSVTAQKY DVTKPDISYK 1250
GLICKQLDEI RIIPKGTRLH VSPAHTEDYQ ECSHQPASLG SGDPRCPKSL 1300
TAIVVDSLKP YCENVEGPPH DVLHRVQKML IDHLSGFVPM NISSETSMLS 1350
AFHKLNHDTS CGPYLGGRKK DHMANGEPDK QLLDLLSAKW KLATQGIALP 1400
HEYTIGLKDE LRPVEKVSEG KRRMIWGCDV GVATVCAAAF KGVSDAITAN 1450
HQYGPIQVGI NMDSPSVEAL FQRIKSAAKV FAVDYSKWDS TQSPRVSAAS 1500
IDILRYFSDR SPIVDSASNT LKSPPVAIFN GVAVKVSSGL PSGMPLTSVI 1550
NSLNHCLYVG CAILQSLEAK AIPVTWNLFS TFDIMTYGDD GVYMFPIMYA 1600
SISDQIFGNL SSYGLKPTRV DKSVGAIEPI DPDSVVFLKR TITRTPQGIR 1650
GLLDRSSIIR QFYYIKGENS DDWKSPPKHI DPTSRGQQLW NACLYASQHG 1700
LEFFNKVYRL AERAVEYEEL HFEPPTYASA LDHYNSQFNG VEARSDQIDS 1750
SGMTALHCDV FEV 1763
Length:1,763
Mass (Da):195,029
Last modified:August 1, 1992 - v1
Checksum:iBE3C34FD49F35D9B
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M86379 Genomic RNA. Translation: AAA79326.1.
Z11536 Genomic RNA. Translation: CAA77635.1.
PIRiA43382. RRWWF9.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M86379 Genomic RNA. Translation: AAA79326.1 .
Z11536 Genomic RNA. Translation: CAA77635.1 .
PIRi A43382. RRWWF9.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2M4H NMR - A 970-1036 [» ]
ProteinModelPortali P27409.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 3.40.50.300. 3 hits.
InterProi IPR003593. AAA+_ATPase.
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.
[Graphical view ]
Pfami PF03510. Peptidase_C24. 1 hit.
PF00680. RdRP_1. 1 hit.
PF00910. RNA_helicase. 1 hit.
[Graphical view ]
PRINTSi PR00916. 2CENDOPTASE.
PR00918. CALICVIRUSNS.
SMARTi SM00382. AAA. 1 hit.
[Graphical view ]
SUPFAMi SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 4 hits.
PROSITEi PS50507. RDRP_SSRNA_POS. 1 hit.
PS51218. SF3_HELICASE_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "The complete nucleotide sequence of a feline calicivirus."
    Carter M.J., Milton I.D., Meanger J., Bennett M., Gaskell R.M., Turner P.C.
    Virology 190:443-448(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. "Cloning and sequence determination of the feline calicivirus strain F9."
    Meanger J., Carter M.J., Gaskell R.M., Turner P.C.
    Biochem. Soc. Trans. 20:26S-26S(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  3. "Identification and sequence determination of the capsid protein gene of feline calicivirus."
    Carter M.J., Milton I.D., Turner P.C., Meanger J., Bennett M., Gaskell R.M.
    Arch. Virol. 122:223-235(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 1098-1763.

Entry informationi

Entry nameiPOLG_FCVF9
AccessioniPrimary (citable) accession number: P27409
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1992
Last sequence update: August 1, 1992
Last modified: July 9, 2014
This is version 101 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

3D-structure, Complete proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Peptidase families
    Classification of peptidase families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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