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Q9ICP7

- MREP_SCSVF

UniProt

Q9ICP7 - MREP_SCSVF

Protein

Master replication protein

Gene

DNA-R

Organism
Subterranean clover stunt virus (strain F) (SCSV)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 41 (01 Oct 2014)
      Sequence version 1 (01 Oct 2000)
      Previous versions | rss
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    Functioni

    Essential for the replication of all genomic viral ssDNA (trans-replication). The closed circular ssDNA genome is first converted to a superhelical dsDNA. Rep binds a specific hairpin at the genome origin of replication. Introduces an endonucleolytic nick within the conserved sequence 5'-A[GT]TATTAC-3' in the intergenic region of the genome, thereby initiating the rolling circle replication (RCR). Following cleavage, binds covalently to the 5'-phosphate of DNA as a tyrosyl ester. The cleavage gives rise to a free 3'-OH that serves as a primer for the cellular DNA polymerase. The polymerase synthesizes the (+) strand DNA by rolling circle mechanism. After one round of replication, a Rep-catalyzed nucleotidyl transfer reaction releases a circular single-stranded virus genome, thereby terminating the replication. Displays origin-specific DNA cleavage, nucleotidyl transferase, ATPase and helicase activities By similarity.By similarity

    Catalytic activityi

    ATP + H2O = ADP + phosphate.

    Cofactori

    Divalent metal cations, possibly magnesium or manganese.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi33 – 331Divalent metal cationSequence Analysis
    Metal bindingi41 – 411Divalent metal cationSequence Analysis
    Active sitei79 – 791For DNA cleavage activityBy similarity
    Metal bindingi84 – 841Divalent metal cationSequence Analysis

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi180 – 1889ATPBy similarity

    GO - Molecular functioni

    1. ATPase activity, uncoupled Source: InterPro
    2. ATP binding Source: UniProtKB-KW
    3. DNA binding Source: UniProtKB-KW
    4. endodeoxyribonuclease activity, producing 5'-phosphomonoesters Source: InterPro
    5. metal ion binding Source: UniProtKB-KW
    6. nucleotidyltransferase activity Source: UniProtKB-KW
    7. RNA binding Source: InterPro
    8. RNA helicase activity Source: InterPro

    GO - Biological processi

    1. DNA replication Source: UniProtKB-KW
    2. protein-DNA covalent cross-linking Source: InterPro

    Keywords - Molecular functioni

    Endonuclease, Helicase, Hydrolase, Nuclease, Nucleotidyltransferase, Transferase

    Keywords - Biological processi

    DNA replication

    Keywords - Ligandi

    ATP-binding, DNA-binding, Metal-binding, Nucleotide-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Master replication protein (EC:2.7.7.-, EC:3.1.21.-, EC:3.6.1.3)
    Short name:
    M-Rep
    Gene namesi
    Name:DNA-R
    Synonyms:C8
    OrganismiSubterranean clover stunt virus (strain F) (SCSV)
    Taxonomic identifieri291607 [NCBI]
    Taxonomic lineageiVirusesssDNA virusesNanoviridaeNanovirus
    Virus hostiMedicago arabica [TaxID: 70936]
    Medicago lupulina [TaxID: 47085]
    Medicago minima [TaxID: 70957]
    Phaseolus vulgaris (Kidney bean) (French bean) [TaxID: 3885]
    Pisum sativum (Garden pea) [TaxID: 3888]
    Trifolium cernuum [TaxID: 74509]
    Trifolium dubium (Suckling clover) (Lesser trefoil) [TaxID: 97021]
    Trifolium glomeratum [TaxID: 74514]
    Trifolium pratense (Red clover) [TaxID: 57577]
    Trifolium repens (Creeping white clover) [TaxID: 3899]
    Trifolium subterraneum (Subterranean clover) [TaxID: 3900]
    Vicia faba (Broad bean) (Faba vulgaris) [TaxID: 3906]
    Wisteria sinensis [TaxID: 20997]
    ProteomesiUP000006543: Genome

    Subcellular locationi

    Host nucleus Curated

    GO - Cellular componenti

    1. host cell nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Host nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 286286Master replication proteinPRO_0000378521Add
    BLAST

    Keywords - PTMi

    Covalent protein-DNA linkage

    Interactioni

    Subunit structurei

    Homooligomer Potential. Rep binds to repeated DNA motifs (iterons) By similarity.By similarityCurated

    Structurei

    3D structure databases

    ProteinModelPortaliQ9ICP7.
    SMRiQ9ICP7. Positions 2-95.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi10 – 134RCR-1By similarity
    Motifi41 – 466RCR-2By similarity
    Motifi50 – 7021Nuclear localization signalSequence AnalysisAdd
    BLAST
    Motifi79 – 824RCR-3By similarity
    Motifi96 – 1027Nuclear localization signalSequence Analysis

    Domaini

    There are 3 rolling circle replication (RCR) motifs. RCR-2 is probably involved in metal coordination. RCR-3 is required for phosphodiester bond cleavage for initiation of RCR By similarity.By similarity

    Sequence similaritiesi

    Family and domain databases

    InterProiIPR000605. Helicase_SF3_ssDNA/RNA_vir.
    IPR003365. Viral_rep_N.
    [Graphical view]
    PfamiPF00910. RNA_helicase. 1 hit.
    PF02407. Viral_Rep. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q9ICP7-1 [UniParc]FASTAAdd to Basket

    « Hide

    MARQVICWCF TLNNPLAPLS LHESMKYLVY QTEAGDNGTI HYQGYVEMKK    50
    RTSLVQMKKL LPGAHLEKRR GSQGEARAYA MKEDSRVEGP WEFGEFKEVL 100
    EDKLRSVMED MKSTGKRPVE YIEDCCNTYD KSSATLREFR GELKKKQAIE 150
    EWQLQRQPWM DEVERLMETK DCRRIIWVYG PQGGEGKTSY AKHLVKTRDA 200
    FYSTGGKTAD IAFAWDHQEL VLFDFPRSFE EYVNYGVIEQ LKNGIVQSGK 250
    YQSIVKYCNY VEVIVFANFI PRSGMFSEDR IVIVYA 286
    Length:286
    Mass (Da):33,281
    Last modified:October 1, 2000 - v1
    Checksum:i3E49185793F09C58
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AJ290434 Genomic DNA. Translation: CAB96405.1.
    RefSeqiNP_620694.1. NC_003812.1.

    Genome annotation databases

    GeneIDi991157.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AJ290434 Genomic DNA. Translation: CAB96405.1 .
    RefSeqi NP_620694.1. NC_003812.1.

    3D structure databases

    ProteinModelPortali Q9ICP7.
    SMRi Q9ICP7. Positions 2-95.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 991157.

    Family and domain databases

    InterProi IPR000605. Helicase_SF3_ssDNA/RNA_vir.
    IPR003365. Viral_rep_N.
    [Graphical view ]
    Pfami PF00910. RNA_helicase. 1 hit.
    PF02407. Viral_Rep. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The master rep concept in nanovirus replication: identification of missing genome components and potential for natural genetic reassortment."
      Timchenko T., Katul L., Sano Y., de Kouchkovsky F., Vetten H.J., Gronenborn B.
      Virology 274:189-195(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].

    Entry informationi

    Entry nameiMREP_SCSVF
    AccessioniPrimary (citable) accession number: Q9ICP7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 7, 2009
    Last sequence update: October 1, 2000
    Last modified: October 1, 2014
    This is version 41 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programViral Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    The genome of nanoviruses is composed of six to eight segments. In addition, some isolates contain subviral DNAs.

    Keywords - Technical termi

    Complete proteome, Multifunctional enzyme, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3