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P27407

- POLG_FCVC6

UniProt

P27407 - POLG_FCVC6

Protein

Genome polyprotein

Gene

ORF1

Organism
Feline calicivirus (strain CFI/68 FIV) (FCV)
Status
Reviewed - Annotation score: 5 out of 5- Protein inferred from homologyi
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    • History
      Entry version 104 (01 Oct 2014)
      Sequence version 3 (30 May 2000)
      Previous versions | rss
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    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 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.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)LengthDescriptionGraphical viewFeature identifierActions
    Sitei46 – 472Cleavage; by Pro-PolBy similarity
    Sitei331 – 3322Cleavage; by Pro-PolBy similarity
    Sitei684 – 6852Cleavage; by Pro-PolBy similarity
    Sitei959 – 9602Cleavage; by Pro-PolBy similarity
    Sitei1070 – 10712Cleavage; by Pro-PolBy similarity
    Active sitei1109 – 11091For protease activityBy similarity
    Active sitei1130 – 11301For protease activityBy similarity
    Active sitei1192 – 11921For protease activityBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi484 – 4918ATPPROSITE-ProRule annotation

    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 gene expression Source: UniProtKB-KW
    3. transcription, DNA-templated Source: InterPro
    4. viral RNA genome replication Source: InterPro

    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 CFI/68 FIV) (FCV)
    Taxonomic identifieri11979 [NCBI]
    Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeVesivirus
    Virus hostiFelidae (cat family) [TaxID: 9681]
    ProteomesiUP000008667: Genome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 17621762Genome polyproteinPRO_0000341990Add
    BLAST
    Chaini1 – 4646Protein p5.6By similarityPRO_0000036892Add
    BLAST
    Chaini47 – 331285Protein p32By similarityPRO_0000036893Add
    BLAST
    Chaini332 – 684353NTPaseBy similarityPRO_0000036894Add
    BLAST
    Chaini685 – 959275Protein p30By similarityPRO_0000036895Add
    BLAST
    Chaini960 – 1070111Viral genome-linked proteinBy similarityPRO_0000036896Add
    BLAST
    Chaini1071 – 1762692Protease-polymerase p76By similarityPRO_0000036897Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei983 – 9831O-(5'-phospho-RNA)-tyrosineBy 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.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.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.By similarity

    Structurei

    3D structure databases

    ProteinModelPortaliP27407.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini458 – 614157SF3 helicasePROSITE-ProRule annotationAdd
    BLAST
    Domaini1094 – 1198105Peptidase C24Add
    BLAST
    Domaini1477 – 1602126RdRp catalyticPROSITE-ProRule annotationAdd
    BLAST

    Domaini

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

    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

    Gene3Di3.40.50.300. 4 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.

    P27407-1 [UniParc]FASTAAdd to Basket

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    MSQTLSFVLK THNVRKDFVR SVKLTLARRR DLQYFYNKLS RSMRAEACPS     50
    CASYDVCPNC TSSDIPDDGS STELIPSWEE VTKTSTYSLL LSEDTSDELC 100
    PDDLANVAAH IRKAISTQSH PANSDMCKEQ LTSLLVMAEA MLPQRSRASI 150
    PLHQQHQAAR LEWREKFFSK PLDFLLERIG VSKDILQITA IWKIILEKAC 200
    YCKSYGEQWF TTAKQKLREM RSYESNTLKP LIGAFIDGLR FMTVDNPYPM 250
    GFLPKLIGLI KPLNLAMIID NHENTLSGWV ITLTAIMELY NITECTIDLM 300
    TSLITAFYDK IGKATKFYSH VKALFTGFRT EDVSNSFWYM AAAILCYLVT 350
    GLIPNNGRFL KIKCLLVRAT TLVSGIIATQ KLAAMFATWN SESIVNELSA 400
    RTVAISELNN PTTTSDTESV ERLLELAKIL HEEIKVHTLN PIMQSYNLIL 450
    RNLMSTLDGV ITCCNKRKAI ARKRQVPVCY ILTGPPGCGK TTAAQALAKK 500
    LSDQEPSVIN LDVDHHDTYT GNEVCIIDEF DSSDKVDYAN FVIGMVNSAP 550
    MVLNCDMLEN KGKLFTSKYI IMTSNSETPV KPSSKRAGAF YRRVTYHDVA 600
    TLVESHKRAR PGTAVPRSCY KKNFSHLSLA KRGAECWCKE YVLDPKGLQH 650
    QSTKAPPPTF LNIDSLAQTM KQDFALKNMA FEAEVGCSEH RYGFVCQQSE 700
    VETVRRLLNA IRMRLNATFT VCVGLEASNS VGCTAHVLTP DEPFNGKRFV 750
    VSRCNEASLS ALEGNCVQTA LGVCMSNKDL THLCHFIKGK IVNDSVRLDE 800
    LPANQHVVTV NSVFDLAWAL RRHSTLTGQF QAIRAAYDVL HVPDKVPAML 850
    RHWMDETSFS DEHVVTQFIT PGGVVILESC GGARIWALGN NVIRAGGVTA 900
    IPTGGCVRLM GLSAQTMPWS EILSELFSLL GKIWSSVKVS TLILTALSMY 950
    ASRFRPKTEA KGKTKSKIGP YRGRGVALTD DEYDEWKEHN AARKLDLSVE 1000
    DFLMLRHRAA LGADDTDAVK FRSWWNSRSR LADDFEDVTV IGKGGVKHEK 1050
    IRTNTLRAVD RGYDVSFAEE SGPGAKFHKN AIGSVTDVCG EHKGYCVHMG 1100
    HGVYASVAHV VKGDSFFLGE RIFDLKTNGE FCCFRSTKIL PSAAPFFSGR 1150
    PTRDPWGSPV ATDWKPKPYS TTSGKIVGCF ATTSTETHPG DCGLPYIDDN 1200
    GRVTGLHTGS GGPKTPSAKL VVPYVHIDMK TKSVTAQKYD VTKPDISYKG 1250
    LVCKQLDEIR IIPKGTRLHV SPAHLEDFEE CSHQPASLGS GDPRCPKSLT 1300
    AIVVDSLKPY CVVVNGPPHD ILHRVQKMLI DHLSGFVPMN ISSDTSMLSA 1350
    FHKLNHDTSC GPYLGGRKKD HMVNGEPDKA LLDLLSSKWK LATQGIALPH 1400
    EYTIGLKDEL RPIEKVQEGK RRMIWGCDVG VATVCAAAFK GVSDAITANH 1450
    QYGPIQVGIN MDSPSVEALF QRIKSARKVF AVDYSKWDST QSPRVSAASI 1500
    DILRYFSDRT PIVDSATNTL KSPPIAVFNG VAVKVSSGLP SGMPLTSVIN 1550
    SLNHCLYVGC AILQSLEARN VPVTWNLFST FDMMTYGDDG VYMFPTMYAS 1600
    ISDQIFANLS AYGLKPTRVD KSVGSIEPID PNSVVFLKRT ITRTPQGIRG 1650
    LLDRSSILRQ FYYIKGENTD NWKEPPKTID PMSRGQQLWN ACLYASQHGI 1700
    DFYNKVYKLA EKAVEYEGLH LEPPSYSTAL EHYNSQFNGV EARTDQIDTS 1750
    GMAALHCDVF EV 1762
    Length:1,762
    Mass (Da):195,339
    Last modified:May 30, 2000 - v3
    Checksum:i61C010202984AF40
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U13992 Genomic RNA. Translation: AAC13992.1.
    M32296 Genomic RNA. Translation: AAA42927.1.
    PIRiA43488.
    T09245.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U13992 Genomic RNA. Translation: AAC13992.1 .
    M32296 Genomic RNA. Translation: AAA42927.1 .
    PIRi A43488.
    T09245.

    3D structure databases

    ProteinModelPortali P27407.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Family and domain databases

    Gene3Di 3.40.50.300. 4 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. Neill J.D.
      Submitted (APR-1998) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    2. "Nucleotide sequence of a region of the feline calicivirus genome which encodes picornavirus-like RNA-dependent RNA polymerase, cysteine protease and 2C polypeptides."
      Neill J.D.
      Virus Res. 17:145-160(1990) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 479-1762.

    Entry informationi

    Entry nameiPOLG_FCVC6
    AccessioniPrimary (citable) accession number: P27407
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 1, 1992
    Last sequence update: May 30, 2000
    Last modified: October 1, 2014
    This is version 104 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programViral Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete 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