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O95985

- TOP3B_HUMAN

UniProt

O95985 - TOP3B_HUMAN

Protein

DNA topoisomerase 3-beta-1

Gene

TOP3B

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 137 (01 Oct 2014)
      Sequence version 1 (01 May 1999)
      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-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand than undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone By similarity. Possesses negatively supercoiled DNA relaxing activity.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
    Active sitei336 – 3361O-(5'-phospho-DNA)-tyrosine intermediateBy similarity

    GO - Molecular functioni

    1. DNA binding Source: ProtInc
    2. DNA topoisomerase activity Source: ProtInc
    3. DNA topoisomerase type I activity Source: UniProtKB-EC
    4. poly(A) RNA binding Source: UniProtKB

    GO - Biological processi

    1. chromosome segregation Source: Ensembl
    2. DNA topological change Source: InterPro

    Keywords - Molecular functioni

    Isomerase, Topoisomerase

    Keywords - Ligandi

    DNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA topoisomerase 3-beta-1 (EC:5.99.1.2)
    Alternative name(s):
    DNA topoisomerase III beta-1
    Gene namesi
    Name:TOP3B
    Synonyms:TOP3B1
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 22

    Organism-specific databases

    HGNCiHGNC:11993. TOP3B.

    Subcellular locationi

    GO - Cellular componenti

    1. condensed chromosome Source: Ensembl
    2. nucleus Source: HPA

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA36674.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 862862DNA topoisomerase 3-beta-1PRO_0000145192Add
    BLAST

    Proteomic databases

    MaxQBiO95985.
    PaxDbiO95985.
    PRIDEiO95985.

    PTM databases

    PhosphoSiteiO95985.

    Expressioni

    Tissue specificityi

    Isoform 1 is found in testis, heart and skeletal muscle. A 4 kb transcript which probably represents isoform 2 is found in thymus, kidney and pancreas.1 Publication

    Gene expression databases

    ArrayExpressiO95985.
    BgeeiO95985.
    CleanExiHS_TOP3B.
    GenevestigatoriO95985.

    Organism-specific databases

    HPAiHPA032134.

    Interactioni

    Protein-protein interaction databases

    BioGridi114452. 14 interactions.
    IntActiO95985. 4 interactions.
    MINTiMINT-1458306.
    STRINGi9606.ENSP00000349705.

    Structurei

    3D structure databases

    ProteinModelPortaliO95985.
    SMRiO95985. Positions 5-633.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini3 – 153151ToprimPROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the type IA topoisomerase family.Curated
    Contains 1 Toprim domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG0550.
    HOGENOMiHOG000184378.
    HOVERGENiHBG059857.
    InParanoidiO95985.
    KOiK03165.
    OMAiCQHSLSM.
    OrthoDBiEOG7RBZ7N.
    PhylomeDBiO95985.
    TreeFamiTF105288.

    Family and domain databases

    Gene3Di1.10.460.10. 2 hits.
    2.70.20.10. 2 hits.
    3.40.50.140. 1 hit.
    InterProiIPR000380. Topo_IA.
    IPR003601. Topo_IA_2.
    IPR023406. Topo_IA_AS.
    IPR013497. Topo_IA_cen.
    IPR013824. Topo_IA_cen_sub1.
    IPR013825. Topo_IA_cen_sub2.
    IPR023405. Topo_IA_core_domain.
    IPR003602. Topo_IA_DNA-bd.
    IPR006171. Toprim_domain.
    [Graphical view]
    PANTHERiPTHR11390. PTHR11390. 1 hit.
    PfamiPF01131. Topoisom_bac. 1 hit.
    PF01751. Toprim. 1 hit.
    [Graphical view]
    PRINTSiPR00417. PRTPISMRASEI.
    SMARTiSM00437. TOP1Ac. 1 hit.
    SM00436. TOP1Bc. 1 hit.
    SM00493. TOPRIM. 1 hit.
    [Graphical view]
    SUPFAMiSSF56712. SSF56712. 1 hit.
    PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view]

    Sequences (3)i

    Sequence statusi: Complete.

    This entry describes 3 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: O95985-1) [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

    MKTVLMVAEK PSLAQSIAKI LSRGSLSSHK GLNGACSVHE YTGTFAGQPV    50
    RFKMTSVCGH VMTLDFLGKY NKWDKVDPAE LFSQAPTEKK EANPKLNMVK 100
    FLQVEGRGCD YIVLWLDCDK EGENICFEVL DAVLPVMNKA HGGEKTVFRA 150
    RFSSITDTDI CNAMACLGEP DHNEALSVDA RQELDLRIGC AFTRFQTKYF 200
    QGKYGDLDSS LISFGPCQTP TLGFCVERHD KIQSFKPETY WVLQAKVNTD 250
    KDRSLLLDWD RVRVFDREIA QMFLNMTKLE KEAQVEATSR KEKAKQRPLA 300
    LNTVEMLRVA SSSLGMGPQH AMQTAERLYT QGYISYPRTE TTHYPENFDL 350
    KGSLRQQANH PYWADTVKRL LAEGINRPRK GHDAGDHPPI TPMKSATEAE 400
    LGGDAWRLYE YITRHFIATV SHDCKYLQST ISFRIGPELF TCSGKTVLSP 450
    GFTEVMPWQS VPLEESLPTC QRGDAFPVGE VKMLEKQTNP PDYLTEAELI 500
    TLMEKHGIGT DASIPVHINN ICQRNYVTVE SGRRLKPTNL GIVLVHGYYK 550
    IDAELVLPTI RSAVEKQLNL IAQGKADYRQ VLGHTLDVFK RKFHYFVDSI 600
    AGMDELMEVS FSPLAATGKP LSRCGKCHRF MKYIQAKPSR LHCSHCDETY 650
    TLPQNGTIKL YKELRCPLDD FELVLWSSGS RGKSYPLCPY CYNHPPFRDM 700
    KKGMGCNECT HPSCQHSLSM LGIGQCVECE SGVLVLDPTS GPKWKVACNK 750
    CNVVAHCFEN AHRVRVSADT CSVCEAALLD VDFNKAKSPL PGDETQHMGC 800
    VFCDPVFQEL VELKHAASCH PMHRGGPGRR QGRGRGRARR PPGKPNPRRP 850
    KDKMSALAAY FV 862
    Length:862
    Mass (Da):96,662
    Last modified:May 1, 1999 - v1
    Checksum:i75532827856CFF8F
    GO
    Isoform 2 (identifier: O95985-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         703-730: GMGCNECTHPSCQHSLSMLGIGQCVECE → GECSHSLLSTGSCSLFSVPTPALHQAGL
         731-862: Missing.

    Show »
    Length:730
    Mass (Da):82,123
    Checksum:i8CC2903C7C4304E6
    GO
    Isoform 3 (identifier: O95985-3) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         703-707: GMGCN → VVPCV
         708-862: Missing.

    Show »
    Length:707
    Mass (Da):79,839
    Checksum:iBE43F9D46B50AA85
    GO

    Sequence cautioni

    The sequence BAA20009.1 differs from that shown. Reason: Erroneous gene model prediction.

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti365 – 3651D → N.1 Publication
    Corresponds to variant rs9610728 [ dbSNP | Ensembl ].
    VAR_052591

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei703 – 73028GMGCN…CVECE → GECSHSLLSTGSCSLFSVPT PALHQAGL in isoform 2. CuratedVSP_006525Add
    BLAST
    Alternative sequencei703 – 7075GMGCN → VVPCV in isoform 3. CuratedVSP_006527
    Alternative sequencei708 – 862155Missing in isoform 3. CuratedVSP_006528Add
    BLAST
    Alternative sequencei731 – 862132Missing in isoform 2. CuratedVSP_006526Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF053082 mRNA. Translation: AAD15791.1.
    D87012 Genomic DNA. Translation: BAA20009.1. Sequence problems.
    AF017146 mRNA. Translation: AAD01614.1.
    AF125216 mRNA. Translation: AAD29670.1.
    CR456596 mRNA. Translation: CAG30482.1.
    BC002432 mRNA. Translation: AAH02432.1.
    CCDSiCCDS13797.1. [O95985-1]
    RefSeqiNP_001269041.1. NM_001282112.1. [O95985-1]
    NP_001269042.1. NM_001282113.1. [O95985-1]
    NP_003926.1. NM_003935.4. [O95985-1]
    XP_005261868.1. XM_005261811.1. [O95985-1]
    XP_006724412.1. XM_006724349.1. [O95985-1]
    XP_006724413.1. XM_006724350.1. [O95985-1]
    XP_006724414.1. XM_006724351.1. [O95985-2]
    XP_006724415.1. XM_006724352.1. [O95985-3]
    UniGeneiHs.436401.

    Genome annotation databases

    EnsembliENST00000357179; ENSP00000349705; ENSG00000100038. [O95985-1]
    ENST00000398793; ENSP00000381773; ENSG00000100038. [O95985-1]
    GeneIDi8940.
    KEGGihsa:8940.
    UCSCiuc002zvs.3. human. [O95985-1]

    Keywords - Coding sequence diversityi

    Alternative splicing, Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF053082 mRNA. Translation: AAD15791.1 .
    D87012 Genomic DNA. Translation: BAA20009.1 . Sequence problems.
    AF017146 mRNA. Translation: AAD01614.1 .
    AF125216 mRNA. Translation: AAD29670.1 .
    CR456596 mRNA. Translation: CAG30482.1 .
    BC002432 mRNA. Translation: AAH02432.1 .
    CCDSi CCDS13797.1. [O95985-1 ]
    RefSeqi NP_001269041.1. NM_001282112.1. [O95985-1 ]
    NP_001269042.1. NM_001282113.1. [O95985-1 ]
    NP_003926.1. NM_003935.4. [O95985-1 ]
    XP_005261868.1. XM_005261811.1. [O95985-1 ]
    XP_006724412.1. XM_006724349.1. [O95985-1 ]
    XP_006724413.1. XM_006724350.1. [O95985-1 ]
    XP_006724414.1. XM_006724351.1. [O95985-2 ]
    XP_006724415.1. XM_006724352.1. [O95985-3 ]
    UniGenei Hs.436401.

    3D structure databases

    ProteinModelPortali O95985.
    SMRi O95985. Positions 5-633.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 114452. 14 interactions.
    IntActi O95985. 4 interactions.
    MINTi MINT-1458306.
    STRINGi 9606.ENSP00000349705.

    PTM databases

    PhosphoSitei O95985.

    Proteomic databases

    MaxQBi O95985.
    PaxDbi O95985.
    PRIDEi O95985.

    Protocols and materials databases

    DNASUi 8940.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000357179 ; ENSP00000349705 ; ENSG00000100038 . [O95985-1 ]
    ENST00000398793 ; ENSP00000381773 ; ENSG00000100038 . [O95985-1 ]
    GeneIDi 8940.
    KEGGi hsa:8940.
    UCSCi uc002zvs.3. human. [O95985-1 ]

    Organism-specific databases

    CTDi 8940.
    GeneCardsi GC22M022309.
    HGNCi HGNC:11993. TOP3B.
    HPAi HPA032134.
    MIMi 603582. gene.
    neXtProti NX_O95985.
    PharmGKBi PA36674.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG0550.
    HOGENOMi HOG000184378.
    HOVERGENi HBG059857.
    InParanoidi O95985.
    KOi K03165.
    OMAi CQHSLSM.
    OrthoDBi EOG7RBZ7N.
    PhylomeDBi O95985.
    TreeFami TF105288.

    Miscellaneous databases

    GeneWikii TOP3B.
    GenomeRNAii 8940.
    NextBioi 33622.
    PROi O95985.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi O95985.
    Bgeei O95985.
    CleanExi HS_TOP3B.
    Genevestigatori O95985.

    Family and domain databases

    Gene3Di 1.10.460.10. 2 hits.
    2.70.20.10. 2 hits.
    3.40.50.140. 1 hit.
    InterProi IPR000380. Topo_IA.
    IPR003601. Topo_IA_2.
    IPR023406. Topo_IA_AS.
    IPR013497. Topo_IA_cen.
    IPR013824. Topo_IA_cen_sub1.
    IPR013825. Topo_IA_cen_sub2.
    IPR023405. Topo_IA_core_domain.
    IPR003602. Topo_IA_DNA-bd.
    IPR006171. Toprim_domain.
    [Graphical view ]
    PANTHERi PTHR11390. PTHR11390. 1 hit.
    Pfami PF01131. Topoisom_bac. 1 hit.
    PF01751. Toprim. 1 hit.
    [Graphical view ]
    PRINTSi PR00417. PRTPISMRASEI.
    SMARTi SM00437. TOP1Ac. 1 hit.
    SM00436. TOP1Bc. 1 hit.
    SM00493. TOPRIM. 1 hit.
    [Graphical view ]
    SUPFAMi SSF56712. SSF56712. 1 hit.
    PROSITEi PS00396. TOPOISOMERASE_I_PROK. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "A new human topoisomerase III that interacts with SGS1 protein."
      Ng S.-W., Liu Y., Hasselblatt K.T., Mok S.C., Berkowitz R.S.
      Nucleic Acids Res. 27:993-1000(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), ALTERNATIVE SPLICING, TISSUE SPECIFICITY.
    2. "One-megabase sequence analysis of the human immunoglobulin lambda gene locus."
      Kawasaki K., Minoshima S., Nakato E., Shibuya K., Shintani A., Schmeits J.L., Wang J., Shimizu N.
      Genome Res. 7:250-261(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    3. Hanai R., Li W., Wang J.C.
      Submitted (AUG-1997) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    4. Riou J.F., Goulaouic H., Grondard L.
      Submitted (FEB-1999) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    6. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), VARIANT ASN-365.
      Tissue: Skin.

    Entry informationi

    Entry nameiTOP3B_HUMAN
    AccessioniPrimary (citable) accession number: O95985
    Secondary accession number(s): A0M8Q3, Q9BUP5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: May 1, 1999
    Last modified: October 1, 2014
    This is version 137 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 22
      Human chromosome 22: entries, gene names and cross-references to MIM
    2. Human entries with polymorphisms or disease mutations
      List of human entries with polymorphisms or disease mutations
    3. Human polymorphisms and disease mutations
      Index of human polymorphisms and disease mutations
    4. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    5. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3