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P30181

- TOP1_ARATH

UniProt

P30181 - TOP1_ARATH

Protein

DNA topoisomerase 1

Gene

TOP1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 108 (01 Oct 2014)
      Sequence version 1 (01 Apr 1993)
      Previous versions | rss
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    Functioni

    Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(3'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 5'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 5'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone By similarity.By similarity

    Catalytic activityi

    ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.PROSITE-ProRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei514 – 5141Interaction with DNABy similarity
    Sitei563 – 5631Interaction with DNABy similarity
    Sitei595 – 5951Interaction with DNABy similarity
    Sitei652 – 6521Interaction with DNABy similarity
    Sitei678 – 6781Interaction with DNABy similarity
    Sitei720 – 7201Interaction with DNABy similarity
    Sitei777 – 7771Interaction with DNABy similarity
    Active sitei872 – 8721O-(3'-phospho-DNA)-tyrosine intermediatePROSITE-ProRule annotation

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. DNA topoisomerase type I activity Source: UniProtKB-EC
    3. DNA topoisomerase type II (ATP-hydrolyzing) activity Source: InterPro

    GO - Biological processi

    1. DNA topological change Source: InterPro

    Keywords - Molecular functioni

    Isomerase, Topoisomerase

    Keywords - Ligandi

    DNA-binding

    Enzyme and pathway databases

    BioCyciARA:AT5G55300-MONOMER.
    ARA:GQT-376-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA topoisomerase 1 (EC:5.99.1.2)
    Alternative name(s):
    DNA topoisomerase I
    Gene namesi
    Name:TOP1
    Ordered Locus Names:At5g55300
    ORF Names:MTE17.1
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 5

    Organism-specific databases

    TAIRiAT5G55300.

    Subcellular locationi

    Nucleus 1 Publication

    GO - Cellular componenti

    1. chromosome Source: InterPro
    2. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 916916DNA topoisomerase 1PRO_0000145206Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei170 – 1701Phosphoserine2 Publications
    Modified residuei286 – 2861Phosphothreonine1 Publication

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    PaxDbiP30181.
    PRIDEiP30181.

    Expressioni

    Gene expression databases

    GenevestigatoriP30181.

    Interactioni

    Protein-protein interaction databases

    BioGridi20867. 1 interaction.
    IntActiP30181. 1 interaction.

    Structurei

    3D structure databases

    ProteinModelPortaliP30181.
    SMRiP30181. Positions 367-913.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni577 – 5782Interaction with DNABy similarity
    Regioni640 – 6456Interaction with DNABy similarity
    Regioni731 – 7333Interaction with DNABy similarity

    Sequence similaritiesi

    Belongs to the type IB topoisomerase family.Curated

    Phylogenomic databases

    eggNOGiCOG3569.
    HOGENOMiHOG000105469.
    InParanoidiP30181.
    KOiK03163.
    PhylomeDBiP30181.

    Family and domain databases

    Gene3Di1.10.10.41. 1 hit.
    1.10.132.10. 1 hit.
    2.170.11.10. 2 hits.
    3.90.15.10. 1 hit.
    InterProiIPR011010. DNA_brk_join_enz.
    IPR013034. DNA_topo_domain1.
    IPR001631. TopoI.
    IPR018521. TopoI_AS.
    IPR025834. TopoI_C_dom.
    IPR014711. TopoI_cat_a-hlx-sub_euk.
    IPR014727. TopoI_cat_a/b-sub_euk.
    IPR013500. TopoI_cat_euk.
    IPR008336. TopoI_DNA-bd_euk.
    IPR013030. TopoI_DNA-bd_mixed-a/b_euk.
    IPR013499. TopoI_euk.
    [Graphical view]
    PfamiPF14370. Topo_C_assoc. 1 hit.
    PF01028. Topoisom_I. 1 hit.
    PF02919. Topoisom_I_N. 1 hit.
    [Graphical view]
    PRINTSiPR00416. EUTPISMRASEI.
    SMARTiSM00435. TOPEUc. 1 hit.
    [Graphical view]
    SUPFAMiSSF56349. SSF56349. 2 hits.
    SSF56741. SSF56741. 1 hit.
    PROSITEiPS00176. TOPOISOMERASE_I_EUK. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    This entry describes 1 isoform i produced by alternative splicing. Align

    Note: A number of isoforms are produced. According to EST sequences.

    Isoform 1 (identifier: P30181-1) [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

    MGTETVSKPV MDNGSGDSDD DKPLAFKRNN TVASNSNQSK SNSQRSKAVP    50
    TTKVSPMRSP VTSPNGTTPS NKTSIVKSSM PSSSSKASPA KSPLRNDMPS 100
    TVKDRSQLQK DQSECKIEHE DSEDDRPLSS ILSGNKGPTS SRQVSSPQPE 150
    KKNNGDRPLD RASRIIKDES DDETPISSMF RKKIDSGMSG GNQLSNDEKK 200
    PLVQKLHQNG STVKNEVPNG KVLGKRPLEK NSSADQSSLK KAKISASPTS 250
    VKMKQDSVKK EIDDKGRVLV SPKMKAKQLS TREDGTDDDD DDDVPISKRF 300
    KSDSSNSNTS SAKPKAVKLN STSSAAKPKA RNVVSPRSRA MTKNTKKVTK 350
    DSKYSTSSKS SPSSGDGQKK WTTLVHNGVI FPPPYKPHGI KILYKGKPVD 400
    LTIEQEEVAT MFAVMRETDY YTKPQFRENF WNDWRRLLGK KHVIQKLDDC 450
    DFTPIYEWHL EEKEKKKQMS TEEKKALKEE KMKQEEKYMW AVVDGVKEKI 500
    GNFRVEPPGL FRGRGEHPKM GKLKKRIHPC EITLNIGKGA PIPECPIAGE 550
    RWKEVKHDNT VTWLAFWADP INPKEFKYVF LGAGSSLKGL SDKEKYEKAR 600
    NLTDHIDNIR TTYTKNFTAK DVKMRQIAVA TYLIDKLALR AGNEKDDDEA 650
    DTVGCCTLKV GNVECIPPNK IKFDFLGKDS IQYVNTVEVE PLVYKAIGQF 700
    QAGKSKTDDL FDELDTSKLN AHLKELVPGL TAKVFRTYNA SITLDEMLSQ 750
    ETKDGDVTQK IVVYQKANKE VAIICNHQRT VSKTHGAQIE KLTARIEELK 800
    EVLKELKTNL DRAKKGKPPL EGSDGKKIRS LEPNAWEKKI AQQSAKIEKM 850
    ERDMHTKEDL KTVALGTSKI NYLDPRITVA WCKRHEVPIE KIFTKSLLEK 900
    FAWAMDVEPE YRFSRR 916
    Length:916
    Mass (Da):102,799
    Last modified:April 1, 1993 - v1
    Checksum:i84BF47913F14454F
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X57544 mRNA. Translation: CAA40763.1.
    AB015479 Genomic DNA. Translation: BAB08547.1.
    CP002688 Genomic DNA. Translation: AED96612.1.
    PIRiS22864.
    RefSeqiNP_200341.1. NM_124912.4. [P30181-1]
    UniGeneiAt.197.

    Genome annotation databases

    EnsemblPlantsiAT5G55300.1; AT5G55300.1; AT5G55300. [P30181-1]
    GeneIDi835623.
    KEGGiath:AT5G55300.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X57544 mRNA. Translation: CAA40763.1 .
    AB015479 Genomic DNA. Translation: BAB08547.1 .
    CP002688 Genomic DNA. Translation: AED96612.1 .
    PIRi S22864.
    RefSeqi NP_200341.1. NM_124912.4. [P30181-1 ]
    UniGenei At.197.

    3D structure databases

    ProteinModelPortali P30181.
    SMRi P30181. Positions 367-913.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 20867. 1 interaction.
    IntActi P30181. 1 interaction.

    Proteomic databases

    PaxDbi P30181.
    PRIDEi P30181.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT5G55300.1 ; AT5G55300.1 ; AT5G55300 . [P30181-1 ]
    GeneIDi 835623.
    KEGGi ath:AT5G55300.

    Organism-specific databases

    TAIRi AT5G55300.

    Phylogenomic databases

    eggNOGi COG3569.
    HOGENOMi HOG000105469.
    InParanoidi P30181.
    KOi K03163.
    PhylomeDBi P30181.

    Enzyme and pathway databases

    BioCyci ARA:AT5G55300-MONOMER.
    ARA:GQT-376-MONOMER.

    Gene expression databases

    Genevestigatori P30181.

    Family and domain databases

    Gene3Di 1.10.10.41. 1 hit.
    1.10.132.10. 1 hit.
    2.170.11.10. 2 hits.
    3.90.15.10. 1 hit.
    InterProi IPR011010. DNA_brk_join_enz.
    IPR013034. DNA_topo_domain1.
    IPR001631. TopoI.
    IPR018521. TopoI_AS.
    IPR025834. TopoI_C_dom.
    IPR014711. TopoI_cat_a-hlx-sub_euk.
    IPR014727. TopoI_cat_a/b-sub_euk.
    IPR013500. TopoI_cat_euk.
    IPR008336. TopoI_DNA-bd_euk.
    IPR013030. TopoI_DNA-bd_mixed-a/b_euk.
    IPR013499. TopoI_euk.
    [Graphical view ]
    Pfami PF14370. Topo_C_assoc. 1 hit.
    PF01028. Topoisom_I. 1 hit.
    PF02919. Topoisom_I_N. 1 hit.
    [Graphical view ]
    PRINTSi PR00416. EUTPISMRASEI.
    SMARTi SM00435. TOPEUc. 1 hit.
    [Graphical view ]
    SUPFAMi SSF56349. SSF56349. 2 hits.
    SSF56741. SSF56741. 1 hit.
    PROSITEi PS00176. TOPOISOMERASE_I_EUK. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Kieber J.K., Signer E.R.
      Submitted (SEP-1990) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Strain: cv. Columbia.
    2. "Structural analysis of Arabidopsis thaliana chromosome 5. VII. Sequence features of the regions of 1,013,767 bp covered by sixteen physically assigned P1 and TAC clones."
      Nakamura Y., Sato S., Asamizu E., Kaneko T., Kotani H., Miyajima N., Tabata S.
      DNA Res. 5:297-308(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Columbia.
    3. The Arabidopsis Information Resource (TAIR)
      Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
      Cited for: GENOME REANNOTATION.
      Strain: cv. Columbia.
    4. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-170, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Tissue: Root.
    5. "Phosphoproteomic analysis of nuclei-enriched fractions from Arabidopsis thaliana."
      Jones A.M.E., MacLean D., Studholme D.J., Serna-Sanz A., Andreasson E., Rathjen J.P., Peck S.C.
      J. Proteomics 72:439-451(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION, PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-170, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Strain: cv. Columbia.
    6. "Large-scale Arabidopsis phosphoproteome profiling reveals novel chloroplast kinase substrates and phosphorylation networks."
      Reiland S., Messerli G., Baerenfaller K., Gerrits B., Endler A., Grossmann J., Gruissem W., Baginsky S.
      Plant Physiol. 150:889-903(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-286, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiTOP1_ARATH
    AccessioniPrimary (citable) accession number: P30181
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 1, 1993
    Last sequence update: April 1, 1993
    Last modified: October 1, 2014
    This is version 108 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Eukaryotic topoisomerase I and II can relax both negative and positive supercoils, whereas prokaryotic enzymes relax only negative supercoils.

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3