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P05653

- GYRA_BACSU

UniProt

P05653 - GYRA_BACSU

Protein

DNA gyrase subunit A

Gene

gyrA

Organism
Bacillus subtilis (strain 168)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 111 (01 Oct 2014)
      Sequence version 1 (01 Nov 1988)
      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 annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei123 – 1231O-(5'-phospho-DNA)-tyrosine intermediateUniRule 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: RefGenome

    GO - Biological processi

    1. ATP catabolic process Source: GOC
    2. chromosome segregation Source: RefGenome
    3. DNA topological change Source: RefGenome
    4. DNA unwinding involved in DNA replication Source: RefGenome

    Keywords - Molecular functioni

    Isomerase, Topoisomerase

    Keywords - Ligandi

    ATP-binding, DNA-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciBSUB:BSU00070-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA gyrase subunit AUniRule annotation (EC:5.99.1.3UniRule annotation)
    Gene namesi
    Name:gyrAUniRule annotation
    Synonyms:cafB, nalA
    Ordered Locus Names:BSU00070
    OrganismiBacillus subtilis (strain 168)
    Taxonomic identifieri224308 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
    ProteomesiUP000001570: Chromosome

    Organism-specific databases

    GenoListiBSU00070. [Micado]

    Subcellular locationi

    Cytoplasm UniRule annotation

    GO - Cellular componenti

    1. chromosome Source: InterPro
    2. cytoplasm Source: UniProtKB-SubCell
    3. DNA topoisomerase complex (ATP-hydrolyzing) Source: RefGenome
    4. nucleoid Source: RefGenome

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 821821DNA gyrase subunit APRO_0000145221Add
    BLAST

    Proteomic databases

    PaxDbiP05653.

    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

    IntActiP05653. 5 interactions.
    MINTiMINT-8366974.
    STRINGi224308.BSU00070.

    Structurei

    Secondary structure

    1
    821
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Turni38 – 403
    Helixi44 – 5512
    Beta strandi60 – 623
    Beta strandi64 – 663
    Helixi67 – 7711
    Helixi82 – 9211
    Turni96 – 983
    Beta strandi103 – 1086
    Beta strandi125 – 1284
    Helixi132 – 1365
    Beta strandi146 – 1483
    Beta strandi152 – 1598
    Helixi166 – 1705
    Beta strandi172 – 1765
    Beta strandi179 – 1835
    Helixi188 – 20013
    Helixi206 – 2105
    Beta strandi222 – 2243
    Helixi227 – 23610
    Beta strandi237 – 2448
    Beta strandi246 – 2516
    Beta strandi257 – 2637
    Helixi270 – 28213
    Beta strandi289 – 2946
    Beta strandi303 – 3075
    Helixi313 – 32311
    Beta strandi324 – 33310
    Beta strandi335 – 34410
    Helixi347 – 38842
    Helixi390 – 3989
    Helixi403 – 41412
    Helixi418 – 4258
    Helixi429 – 4324
    Helixi434 – 45926
    Helixi461 – 47919
    Beta strandi485 – 4873

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4DDQX-ray3.30A/B/C/D/E/F1-502[»]
    ProteinModelPortaliP05653.
    SMRiP05653. Positions 11-809.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the topoisomerase GyrA/ParC subunit family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0188.
    HOGENOMiHOG000076278.
    KOiK02469.
    OMAiQTVFGIN.
    OrthoDBiEOG661H5V.
    PhylomeDBiP05653.

    Family and domain databases

    Gene3Di3.30.1360.40. 1 hit.
    3.90.199.10. 2 hits.
    HAMAPiMF_01897. GyrA.
    InterProiIPR024946. Arg_repress_C-like.
    IPR005743. GyrA.
    IPR006691. GyrA/parC_pinwhl.
    IPR002205. Topo_IIA_A/C.
    IPR013758. Topo_IIA_A/C_ab.
    IPR013760. Topo_IIA_like_dom.
    [Graphical view]
    PfamiPF03989. DNA_gyraseA_C. 6 hits.
    PF00521. DNA_topoisoIV. 1 hit.
    [Graphical view]
    SMARTiSM00434. TOP4c. 1 hit.
    [Graphical view]
    SUPFAMiSSF56719. SSF56719. 1 hit.
    TIGRFAMsiTIGR01063. gyrA. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    P05653-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSEQNTPQVR EINISQEMRT SFLDYAMSVI VSRALPDVRD GLKPVHRRIL    50
    YAMNDLGMTS DKPYKKSARI VGEVIGKYHP HGDSAVYESM VRMAQDFNYR 100
    YMLVDGHGNF GSVDGDSAAA MRYTEARMSK ISMEILRDIT KDTIDYQDNY 150
    DGSEREPVVM PSRFPNLLVN GAAGIAVGMA TNIPPHQLGE IIDGVLAVSE 200
    NPDITIPELM EVIPGPDFPT AGQILGRSGI RKAYESGRGS ITIRAKAEIE 250
    QTSSGKERII VTELPYQVNK AKLIEKIADL VRDKKIEGIT DLRDESDRTG 300
    MRIVIEIRRD ANANVILNNL YKQTALQTSF GINLLALVDG QPKVLTLKQC 350
    LEHYLDHQKV VIRRRTAYEL RKAEARAHIL EGLRVALDHL DAVISLIRNS 400
    QTAEIARTGL IEQFSLTEKQ AQAILDMRLQ RLTGLEREKI EEEYQSLVKL 450
    IAELKDILAN EYKVLEIIRE ELTEIKERFN DERRTEIVTS GLETIEDEDL 500
    IERENIVVTL THNGYVKRLP ASTYRSQKRG GKGVQGMGTN EDDFVEHLIS 550
    TSTHDTILFF SNKGKVYRAK GYEIPEYGRT AKGIPIINLL EVEKGEWINA 600
    IIPVTEFNAE LYLFFTTKHG VSKRTSLSQF ANIRNNGLIA LSLREDDELM 650
    GVRLTDGTKQ IIIGTKNGLL IRFPETDVRE MGRTAAGVKG ITLTDDDVVV 700
    GMEILEEESH VLIVTEKGYG KRTPAEEYRT QSRGGKGLKT AKITENNGQL 750
    VAVKATKGEE DLMIITASGV LIRMDINDIS ITGRVTQGVR LIRMAEEEHV 800
    ATVALVEKNE EDENEEEQEE V 821
    Length:821
    Mass (Da):92,099
    Last modified:November 1, 1988 - v1
    Checksum:i717847A5F35FB857
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X02369 Genomic DNA. Translation: CAA26222.1.
    D26185 Genomic DNA. Translation: BAA05243.1.
    AL009126 Genomic DNA. Translation: CAB11783.1.
    PIRiF22930.
    RefSeqiNP_387888.1. NC_000964.3.

    Genome annotation databases

    EnsemblBacteriaiCAB11783; CAB11783; BSU00070.
    GeneIDi940002.
    KEGGibsu:BSU00070.
    PATRICi18971463. VBIBacSub10457_0008.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X02369 Genomic DNA. Translation: CAA26222.1 .
    D26185 Genomic DNA. Translation: BAA05243.1 .
    AL009126 Genomic DNA. Translation: CAB11783.1 .
    PIRi F22930.
    RefSeqi NP_387888.1. NC_000964.3.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4DDQ X-ray 3.30 A/B/C/D/E/F 1-502 [» ]
    ProteinModelPortali P05653.
    SMRi P05653. Positions 11-809.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi P05653. 5 interactions.
    MINTi MINT-8366974.
    STRINGi 224308.BSU00070.

    Chemistry

    BindingDBi P05653.

    Proteomic databases

    PaxDbi P05653.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai CAB11783 ; CAB11783 ; BSU00070 .
    GeneIDi 940002.
    KEGGi bsu:BSU00070.
    PATRICi 18971463. VBIBacSub10457_0008.

    Organism-specific databases

    GenoListi BSU00070. [Micado ]

    Phylogenomic databases

    eggNOGi COG0188.
    HOGENOMi HOG000076278.
    KOi K02469.
    OMAi QTVFGIN.
    OrthoDBi EOG661H5V.
    PhylomeDBi P05653.

    Enzyme and pathway databases

    BioCyci BSUB:BSU00070-MONOMER.

    Miscellaneous databases

    PROi P05653.

    Family and domain databases

    Gene3Di 3.30.1360.40. 1 hit.
    3.90.199.10. 2 hits.
    HAMAPi MF_01897. GyrA.
    InterProi IPR024946. Arg_repress_C-like.
    IPR005743. GyrA.
    IPR006691. GyrA/parC_pinwhl.
    IPR002205. Topo_IIA_A/C.
    IPR013758. Topo_IIA_A/C_ab.
    IPR013760. Topo_IIA_like_dom.
    [Graphical view ]
    Pfami PF03989. DNA_gyraseA_C. 6 hits.
    PF00521. DNA_topoisoIV. 1 hit.
    [Graphical view ]
    SMARTi SM00434. TOP4c. 1 hit.
    [Graphical view ]
    SUPFAMi SSF56719. SSF56719. 1 hit.
    TIGRFAMsi TIGR01063. gyrA. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Structure and function of the region of the replication origin of the Bacillus subtilis chromosome. III. Nucleotide sequence of some 10,000 base pairs in the origin region."
      Moriya S., Ogasawara N., Yoshikawa H.
      Nucleic Acids Res. 13:2251-2265(1985) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "Systematic sequencing of the 180 kilobase region of the Bacillus subtilis chromosome containing the replication origin."
      Ogasawara N., Nakai S., Yoshikawa H.
      DNA Res. 1:1-14(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: 168.
    3. "The complete genome sequence of the Gram-positive bacterium Bacillus subtilis."
      Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V.
      , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A.
      Nature 390:249-256(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: 168.

    Entry informationi

    Entry nameiGYRA_BACSU
    AccessioniPrimary (citable) accession number: P05653
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1988
    Last sequence update: November 1, 1988
    Last modified: October 1, 2014
    This is version 111 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Bacillus subtilis
      Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3