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P54634

- POLG_LORDV

UniProt

P54634 - POLG_LORDV

Protein

Genome polyprotein

Gene

ORF1

Organism
Lordsdale virus (strain GII/Human/United Kingdom/Lordsdale/1993) (Human enteric calicivirus) (Hu/NV/LD/1993/UK)
Status
Reviewed - Annotation score: 5 out of 5- Protein inferred from homologyi
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    • History
      Entry version 90 (01 Oct 2014)
      Sequence version 1 (01 Oct 1996)
      Previous versions | rss
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    Functioni

    Protein p37 may play a role in viral replication by interacting with host VAPA, a vesicle-associated membrane protein that plays a role in SNARE-mediated vesicle fusion. This interaction may target replication complex to intracellular membranes By similarity.By similarity
    NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity By similarity.By similarity
    Protein P20 may play a role in targeting replication complex to intracellular membranes.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
    3C-like protease processes the polyprotein: 3CLpro-RdRp is first released by autocleavage, then all other proteins are cleaved. May cleave polyadenylate-binding protein thereby inhibiting cellular translation.PROSITE-ProRule annotation
    RNA-directed RNA polymerase replicates genomic and antigenomic RNA by recognizing replications 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.PROSITE-ProRule annotation

    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.PROSITE-ProRule annotation
    Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).PROSITE-ProRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei330 – 3312Cleavage; by 3CLproBy similarity
    Sitei696 – 6972Cleavage; by 3CLproBy similarity
    Sitei875 – 8762Cleavage; by 3CLproBy similarity
    Sitei1008 – 10092Cleavage; by 3CLproBy similarity
    Active sitei1038 – 10381For 3CLpro activityPROSITE-ProRule annotation
    Active sitei1062 – 10621For 3CLpro activityPROSITE-ProRule annotation
    Active sitei1147 – 11471For 3CLpro activityPROSITE-ProRule annotation
    Sitei1189 – 11902Cleavage; by 3CLproBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi495 – 5028ATPPROSITE-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. transcription, DNA-templated Source: InterPro
    3. viral RNA genome replication Source: InterPro

    Keywords - Molecular functioni

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

    Keywords - Biological processi

    Host-virus interaction, Viral RNA replication

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding

    Protein family/group databases

    MEROPSiC37.001.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Genome polyprotein
    Cleaved into the following 6 chains:
    Alternative name(s):
    p40
    Alternative name(s):
    VPG
    3C-like protease (EC:3.4.22.66)
    Short name:
    3CLpro
    Alternative name(s):
    Calicivirin
    Gene namesi
    ORF Names:ORF1
    OrganismiLordsdale virus (strain GII/Human/United Kingdom/Lordsdale/1993) (Human enteric calicivirus) (Hu/NV/LD/1993/UK)
    Taxonomic identifieri82658 [NCBI]
    Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeNorovirus
    Virus hostiHomo sapiens (Human) [TaxID: 9606]
    ProteomesiUP000007767: Genome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 16991699Genome polyproteinPRO_0000341998Add
    BLAST
    Chaini1 – 330330Protein p37PRO_0000036914Add
    BLAST
    Chaini331 – 696366NTPasePRO_0000036915Add
    BLAST
    Chaini697 – 875179Protein p20PRO_0000036916Add
    BLAST
    Chaini876 – 1007132Viral genome-linked proteinPRO_0000036917Add
    BLAST
    Chaini1008 – 11891823C-like proteasePRO_0000036918Add
    BLAST
    Chaini1190 – 1699510RNA-directed RNA polymerasePRO_0000036919Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei902 – 9021O-(5'-phospho-RNA)-tyrosineBy similarity

    Post-translational modificationi

    Specific enzymatic cleavages in vivo yield mature proteins. 3CLpro is first autocatalytically cleaved, then processes the whole polyprotein.PROSITE-ProRule annotation
    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 p37 interacts with human VAPA.By similarity

    Structurei

    3D structure databases

    ProteinModelPortaliP54634.
    SMRiP54634. Positions 1009-1188, 1195-1695.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini465 – 632168SF3 helicasePROSITE-ProRule annotationAdd
    BLAST
    Domaini1009 – 1189181Peptidase C37PROSITE-ProRule annotationAdd
    BLAST
    Domaini1425 – 1546122RdRp catalyticPROSITE-ProRule annotationAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi69 – 735Poly-Pro
    Compositional biasi944 – 9474Poly-Glu

    Sequence similaritiesi

    Contains 1 peptidase C37 domain.PROSITE-ProRule annotation
    Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation
    Contains 1 SF3 helicase domain.PROSITE-ProRule annotation

    Family and domain databases

    Gene3Di3.40.50.300. 1 hit.
    InterProiIPR003593. AAA+_ATPase.
    IPR000605. Helicase_SF3_ssDNA/RNA_vir.
    IPR014759. Helicase_SF3_ssRNA_vir.
    IPR001665. Norovirus_pept_C37.
    IPR027417. P-loop_NTPase.
    IPR001205. RNA-dir_pol_C.
    IPR007094. RNA-dir_pol_PSvirus.
    IPR009003. Trypsin-like_Pept_dom.
    IPR013614. Viral_PP_Calicivir_N.
    [Graphical view]
    PfamiPF08405. Calici_PP_N. 1 hit.
    PF05416. Peptidase_C37. 1 hit.
    PF00680. RdRP_1. 1 hit.
    PF00910. RNA_helicase. 1 hit.
    [Graphical view]
    PRINTSiPR00917. SRSVCYSPTASE.
    SMARTiSM00382. AAA. 1 hit.
    [Graphical view]
    SUPFAMiSSF50494. SSF50494. 1 hit.
    SSF52540. SSF52540. 1 hit.
    PROSITEiPS51537. NV_3CL_PRO. 1 hit.
    PS50507. 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.

    P54634-1 [UniParc]FASTAAdd to Basket

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    MKMASNDASA AAVVNSNNDT AKSSSDGVLS SMAVTFKRAL GGRAKQPPPR     50
    ETPQRPPRPP TPELVKKIPP PPPNGEDELV VSYSVKDGVS GLPELSTVRQ 100
    PDEANTAFSV PPLNQRENRD AKEPLTGTIL EMWDGEIYHY GLYVERGLVL 150
    GVHKPPAAIS LAKVELTPLS LFWRPVYTPQ YLISPDTLKR LHGESFPYTA 200
    FDNNCYAFCC WVLDLNDSWL SRRMIQRTTG FFRPYQDWNR KPLPTMDDSK 250
    LKKVANVFLC ALSSLFTRPI KDIIGKLRPL NILNILASCD WTFAGIVESL 300
    ILLAELFGVF WTPPDVSAMI APLLGDYELQ GPEDLAVELV PIVMGGIGLV 350
    LGFTKEKIGK MLSSAASTLR ACKDLGAYGL EILKLVMKWF FPKKEEANEL 400
    AMVRSIEDAV LDLEAIENNH MTTLLKDKDS LATYMRTLDL EEEKARKLST 450
    KSASPDIVGT INALLARIAA ARSLVHRAKE ELSSRLRPVV VMISGKPGIG 500
    KTHLARELAK RIAASLTGDQ RVGLIPRNGV DHWDAYKGER VVLWDDYGMS 550
    NPIHDALRLQ ELADTCPLTL NCDRIENKGK VFDSDAIIIT TNLANPAPLD 600
    YVNFEACSRR IDFLVYAEAP EVEKAKRDFP GQPDMWKNAF SPDFSHIKLA 650
    LAPQGGFDKN GNTPHGKGVM KTLTTGSLIA RASGLLHERL DEYELQGPAL 700
    TTFNFDRNKV LAFRQLAAEN KYGLMDTMKV GRQLKDVRTM PELKQALKNI 750
    SIKRCQIVYS GCTYTLESDG KGNVKVDRVQ SATVQTNHEL AGALHHLRCA 800
    RIRYYVKCVQ EALYSIIQIA GAAFVTTRIV KRMNIQDLWS KPQVEDTEDT 850
    ANKDGCPKPK DDEEFVVSSD DIKTEGKKGK NKTGRGKKHT AFSSKGLSDE 900
    EYDEYKRIRE ERNGKYSIEE YLQDRDKYYE EVAIARATEE DFCEEEEAKI 950
    RQRIFRPTRK QRKEERASLG LVTGSEIRKR NPDDFKPKGK LWADDDRSVD 1000
    YNEKLDFEAP PSIWSRIVNF GSGWGFWVSP SLFITSTHVI PQGAQEFFGV 1050
    PVKQIQIHKS GEFCRLRFPK PIRTDVTGMI LEEGAPEGTV VTLLIKRSTG 1100
    ELMPLAARMG THATMKIQGR TVGGQMGMLL TGSNAKSMDL GTTPGDCGCP 1150
    YIYKRENDYV VIGVHTAAAR GGNTVICATQ GSEGEATLEG GDNKGTYCGA 1200
    PILGPGSAPK LSTKTKFWRS STAPLPPGTY EPAYLGGKDP RVKGGPSLQQ 1250
    VMRDQLKPFT EPRGKPPKPS VLEAAKRTII NVLEQTIDPP QKWSFTQACA 1300
    SLDKTTSSGH PHHMRKNDCW NGESFTGKLA DQASKANLMF EEGKNMTPVY 1350
    TGALKDELVK TDKIYGKIKK RLLWGSDLAT MIRCARAFGG LMDELKAHCV 1400
    TLPIRVGMNM NEDGPIIFER HSRYKYHYDA DYSRWDSTQQ RAVLAAALEI 1450
    MVKFSPEPHL AQIVAEDLLS PSVMDVGDFK ISINEGLPSG VPCTSQWNSI 1500
    AHWLLTLCAL SEVTNLSPDI IQANSLFSFY GDDEIVSTDI NLNPEKLTAK 1550
    LKEYGLKPTR PDKTEGPLII SEDLNGLTFL RRTVTRDPAG WFGKLDQSSI 1600
    LRQMYWTRGP NHEDPSETMI PHSQRPIQLM SLLGEAALHG PAFYSKISKL 1650
    VIAELKEGGM DFYVPRQEPM FRWMRFSDLS TWEGDRNLAP SFVNEDGVE 1699
    Length:1,699
    Mass (Da):189,201
    Last modified:October 1, 1996 - v1
    Checksum:iFA00B3B67FF3A0B6
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X86557 Genomic RNA. Translation: CAA60254.1.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X86557 Genomic RNA. Translation: CAA60254.1 .

    3D structure databases

    ProteinModelPortali P54634.
    SMRi P54634. Positions 1009-1188, 1195-1695.
    ModBasei Search...
    MobiDBi Search...

    Protein family/group databases

    MEROPSi C37.001.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Family and domain databases

    Gene3Di 3.40.50.300. 1 hit.
    InterProi IPR003593. AAA+_ATPase.
    IPR000605. Helicase_SF3_ssDNA/RNA_vir.
    IPR014759. Helicase_SF3_ssRNA_vir.
    IPR001665. Norovirus_pept_C37.
    IPR027417. P-loop_NTPase.
    IPR001205. RNA-dir_pol_C.
    IPR007094. RNA-dir_pol_PSvirus.
    IPR009003. Trypsin-like_Pept_dom.
    IPR013614. Viral_PP_Calicivir_N.
    [Graphical view ]
    Pfami PF08405. Calici_PP_N. 1 hit.
    PF05416. Peptidase_C37. 1 hit.
    PF00680. RdRP_1. 1 hit.
    PF00910. RNA_helicase. 1 hit.
    [Graphical view ]
    PRINTSi PR00917. SRSVCYSPTASE.
    SMARTi SM00382. AAA. 1 hit.
    [Graphical view ]
    SUPFAMi SSF50494. SSF50494. 1 hit.
    SSF52540. SSF52540. 1 hit.
    PROSITEi PS51537. NV_3CL_PRO. 1 hit.
    PS50507. RDRP_SSRNA_POS. 1 hit.
    PS51218. SF3_HELICASE_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Human enteric Caliciviridae: the complete genome sequence and expression of virus-like particles from a genetic group II small round structured virus."
      Dingle K.E., Lambden P.R., Caul E.O., Clarke I.N.
      J. Gen. Virol. 76:2349-2355(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

    Entry informationi

    Entry nameiPOLG_LORDV
    AccessioniPrimary (citable) accession number: P54634
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 1, 1996
    Last sequence update: October 1, 1996
    Last modified: October 1, 2014
    This is version 90 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

    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