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Q5Z3Z3

- Q5Z3Z3_NOCFA

UniProt

Q5Z3Z3 - Q5Z3Z3_NOCFA

Protein

DNA gyrase subunit B

Gene

gyrB

Organism
Nocardia farcinica (strain IFM 10152)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 87 (01 Oct 2014)
      Sequence version 1 (23 Nov 2004)
      Previous versions | rss
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    Functioni

    DNA gyrase negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner and also catalyzes the interconversion of other topological isomers of double-stranded DNA rings, including catenanes and knotted rings.UniRule annotation

    Catalytic activityi

    ATP-dependent breakage, passage and rejoining of double-stranded DNA.UniRule annotationSAAS annotation

    Cofactori

    Magnesium. Binds two Mg2+ per subunit. The magnesium ions form salt bridges with both the protein and the DNA. Can also accept other divalent metal cations, such as Mn2+ and Ca2+.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi480 – 4801Magnesium 1; catalyticUniRule annotation
    Sitei505 – 5051Interaction with DNAUniRule annotation
    Sitei508 – 5081Interaction with DNAUniRule annotation
    Metal bindingi553 – 5531Magnesium 1; catalyticUniRule annotation
    Metal bindingi553 – 5531Magnesium 2UniRule annotation
    Metal bindingi555 – 5551Magnesium 2UniRule annotation

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-HAMAP
    2. DNA binding Source: UniProtKB-HAMAP
    3. DNA topoisomerase type II (ATP-hydrolyzing) activity Source: UniProtKB-HAMAP
    4. magnesium ion binding Source: UniProtKB-HAMAP

    GO - Biological processi

    1. DNA-dependent DNA replication Source: UniProtKB-HAMAP
    2. DNA topological change Source: InterPro

    Keywords - Molecular functioni

    Isomerase, TopoisomeraseUniRule annotationSAAS annotation

    Keywords - Ligandi

    ATP-bindingUniRule annotationSAAS annotation, DNA-bindingUniRule annotation, MagnesiumUniRule annotation, Metal-bindingUniRule annotation, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciNFAR247156:GJ9T-6-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA gyrase subunit BUniRule annotation (EC:5.99.1.3UniRule annotation)
    Gene namesi
    Name:gyrBUniRule annotationImported
    Ordered Locus Names:NFA_60Imported
    OrganismiNocardia farcinica (strain IFM 10152)Imported
    Taxonomic identifieri247156 [NCBI]
    Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeNocardiaceaeNocardia
    ProteomesiUP000006820: Chromosome

    Subcellular locationi

    Cytoplasm UniRule annotation

    GO - Cellular componenti

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

    Keywords - Cellular componenti

    CytoplasmUniRule annotation

    Interactioni

    Subunit structurei

    Heterotetramer, composed of two GyrA and two GyrB chains. Within the heterotetramer, GyrA contains the active site tyrosine that forms a covalent intermediate with the DNA, while GyrB contributes the cofactor binding sites and catalyzes ATP hydrolysis.UniRule annotation

    Protein-protein interaction databases

    STRINGi247156.nfa60.

    Structurei

    3D structure databases

    ProteinModelPortaliQ5Z3Z3.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini474 – 588115ToprimUniRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the type II topoisomerase family.UniRule annotation
    Contains 1 Toprim domain.UniRule annotation
    Contains Toprim domain.SAAS annotation

    Phylogenomic databases

    KOiK02470.
    OMAiCCAIATR.
    OrthoDBiEOG6P334W.

    Family and domain databases

    Gene3Di3.30.230.10. 1 hit.
    3.30.565.10. 1 hit.
    3.40.50.670. 1 hit.
    HAMAPiMF_01898. GyrB.
    InterProiIPR002288. DNA_gyrase_B_C.
    IPR011557. GyrB.
    IPR003594. HATPase_ATP-bd.
    IPR020568. Ribosomal_S5_D2-typ_fold.
    IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
    IPR001241. Topo_IIA.
    IPR013506. Topo_IIA_bsu_dom2.
    IPR013759. Topo_IIA_cen_dom.
    IPR013760. Topo_IIA_like_dom.
    IPR018522. TopoIIA_CS.
    IPR006171. Toprim_domain.
    [Graphical view]
    PfamiPF00204. DNA_gyraseB. 1 hit.
    PF00986. DNA_gyraseB_C. 1 hit.
    PF02518. HATPase_c. 1 hit.
    PF01751. Toprim. 1 hit.
    [Graphical view]
    PRINTSiPR00418. TPI2FAMILY.
    SMARTiSM00387. HATPase_c. 1 hit.
    SM00433. TOP2c. 1 hit.
    [Graphical view]
    SUPFAMiSSF54211. SSF54211. 1 hit.
    SSF55874. SSF55874. 1 hit.
    SSF56719. SSF56719. 1 hit.
    TIGRFAMsiTIGR01059. gyrB. 1 hit.
    PROSITEiPS00177. TOPOISOMERASE_II. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q5Z3Z3-1 [UniParc]FASTAAdd to Basket

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    MCCAIATRRS ASKESYRPVA AKHSNESGSK STNYGASSIT VLEGLEAVRK    50
    RPGMYIGSTG ERGLHHLIWE VVDNSVDEAM AGYATRVDVT LLADGGVEVV 100
    DDGRGIPVEM HAQGIPTVEV VMTQLHAGGK FDSESYAVSG GLHGVGISVV 150
    NALSSRVEVE IDVDGYHWSQ TYKEATPSKL VKGEPTDRTG TTVRFWADPE 200
    IFETTTYNFE TVARRLQEMA FLNKGLTITL TDERVSESDV TDEIVSETAE 250
    APKHGEPTGE AASEHKVKTR TYHYPGGLED FVRHINRTKQ AIHNSVVSFT 300
    GKGTGHELEV AMQWNSGYSE SVHTFANTIN THEGGTHEEG FRAALTTVVN 350
    KYAKDKKLLK EKDGNLTGDD IREGLAAIVS VKVAEPQFEG QTKTKLGNTE 400
    VKSFVQRTCN EHLTHWFEAN PADAKTIVQK AVSSAQARVA ARKARELVRR 450
    KSATDLGGLP GKLADCRSKD PSKSEIYIVE GDSAGGSAKS GRDSMYQAIL 500
    PLRGKIINVE KARIDKVLKN NEVQSIITAF GTGIHDEFDI SKLRYHKIVL 550
    MADADVDGQH ISTLLLTLLF RFMRPLVEHG HVYLAQPPLY KLKWQRSEPE 600
    FAYSDRERDG LLERGLAAGK KINKDDGIQR YKGLGEMNPK ELWETTMDPS 650
    VRVLRQVTLD DAAAADELFS VLMGEDVEAR RSFITRNAKD VRFLDV 696
    Length:696
    Mass (Da):76,678
    Last modified:November 23, 2004 - v1
    Checksum:i26B9306DC1221E59
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006618 Genomic DNA. Translation: BAD54848.1.
    RefSeqiYP_116212.1. NC_006361.1.

    Genome annotation databases

    EnsemblBacteriaiBAD54848; BAD54848; NFA_60.
    GeneIDi3109626.
    KEGGinfa:nfa60.
    PATRICi22729460. VBINocFar94200_0006.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006618 Genomic DNA. Translation: BAD54848.1 .
    RefSeqi YP_116212.1. NC_006361.1.

    3D structure databases

    ProteinModelPortali Q5Z3Z3.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 247156.nfa60.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD54848 ; BAD54848 ; NFA_60 .
    GeneIDi 3109626.
    KEGGi nfa:nfa60.
    PATRICi 22729460. VBINocFar94200_0006.

    Phylogenomic databases

    KOi K02470.
    OMAi CCAIATR.
    OrthoDBi EOG6P334W.

    Enzyme and pathway databases

    BioCyci NFAR247156:GJ9T-6-MONOMER.

    Family and domain databases

    Gene3Di 3.30.230.10. 1 hit.
    3.30.565.10. 1 hit.
    3.40.50.670. 1 hit.
    HAMAPi MF_01898. GyrB.
    InterProi IPR002288. DNA_gyrase_B_C.
    IPR011557. GyrB.
    IPR003594. HATPase_ATP-bd.
    IPR020568. Ribosomal_S5_D2-typ_fold.
    IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
    IPR001241. Topo_IIA.
    IPR013506. Topo_IIA_bsu_dom2.
    IPR013759. Topo_IIA_cen_dom.
    IPR013760. Topo_IIA_like_dom.
    IPR018522. TopoIIA_CS.
    IPR006171. Toprim_domain.
    [Graphical view ]
    Pfami PF00204. DNA_gyraseB. 1 hit.
    PF00986. DNA_gyraseB_C. 1 hit.
    PF02518. HATPase_c. 1 hit.
    PF01751. Toprim. 1 hit.
    [Graphical view ]
    PRINTSi PR00418. TPI2FAMILY.
    SMARTi SM00387. HATPase_c. 1 hit.
    SM00433. TOP2c. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54211. SSF54211. 1 hit.
    SSF55874. SSF55874. 1 hit.
    SSF56719. SSF56719. 1 hit.
    TIGRFAMsi TIGR01059. gyrB. 1 hit.
    PROSITEi PS00177. TOPOISOMERASE_II. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: IFM 10152Imported.

    Entry informationi

    Entry nameiQ5Z3Z3_NOCFA
    AccessioniPrimary (citable) accession number: Q5Z3Z3
    Entry historyi
    Integrated into UniProtKB/TrEMBL: November 23, 2004
    Last sequence update: November 23, 2004
    Last modified: October 1, 2014
    This is version 87 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteomeImported

    External Data

    Dasty 3