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O34303

- YDJA_BACSU

UniProt

O34303 - YDJA_BACSU

Protein

Type-2 restriction enzyme BsuMI component YdjA

Gene

ydjA

Organism
Bacillus subtilis (strain 168)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 71 (01 Oct 2014)
      Sequence version 1 (01 Jan 1998)
      Previous versions | rss
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    Functioni

    Recognizes the double-stranded sequence CTCGAG; the cleavage site is unknown.

    Catalytic activityi

    Endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates.

    GO - Molecular functioni

    1. Type II site-specific deoxyribonuclease activity Source: UniProtKB-EC

    GO - Biological processi

    1. DNA restriction-modification system Source: UniProtKB-KW

    Keywords - Molecular functioni

    Endonuclease, Hydrolase, Nuclease

    Keywords - Biological processi

    Restriction system

    Enzyme and pathway databases

    BioCyciBSUB:BSU06110-MONOMER.

    Protein family/group databases

    REBASEi619. BsuMI.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Type-2 restriction enzyme BsuMI component YdjA (EC:3.1.21.4)
    Short name:
    R.BsuM
    Short name:
    R.BsuMI
    Alternative name(s):
    Endonuclease BsuMI component YdjA
    Type II restriction enzyme BsuMI component YdjA
    Gene namesi
    Name:ydjA
    Ordered Locus Names:BSU06110
    OrganismiBacillus subtilis (strain 168)
    Taxonomic identifieri224308 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
    ProteomesiUP000001570: Chromosome

    Organism-specific databases

    GenoListiBSU06110.

    Pathology & Biotechi

    Disruption phenotypei

    Not essential; its disruption results in increased transformation by plasmid DNA carrying multiple BsuMI target sequences.1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 465465Type-2 restriction enzyme BsuMI component YdjAPRO_0000379883Add
    BLAST

    Proteomic databases

    PaxDbiO34303.

    Expressioni

    Developmental stagei

    Not expressed during sporulation.1 Publication

    Inductioni

    Constitutively expressed during exponential growth. Encoded in an operon with ydiR and ydiS.1 Publication

    Interactioni

    Subunit structurei

    BsuMI restriction activity requires YdiR, YdiS and YdjA.

    Protein-protein interaction databases

    STRINGi224308.BSU06110.

    Structurei

    3D structure databases

    ProteinModelPortaliO34303.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Phylogenomic databases

    eggNOGiNOG15592.
    HOGENOMiHOG000080449.
    OMAiKERWISI.
    OrthoDBiEOG6PW23V.

    Family and domain databases

    InterProiIPR018579. Restrct_endonuc_II_LlaJI.
    [Graphical view]
    PfamiPF09563. RE_LlaJI. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O34303-1 [UniParc]FASTAAdd to Basket

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    MDKSSKFFFE DQKYNKERIV RVLGGNLALL KSKGILYEDS SGDLIFNYVG    50
    VISNGRNVIF ILPKYCNRHL DEHSKRTLFN KLLKIFKKYS GLNKSRESDY 100
    FVSELDSDEV SDFMIADYLL NDFSLNGYYQ KKFTEYEIDG EGIIDWSKTV 150
    NEITPVFSKG VPYYFSTYNE VVQKDEYHLI VKIHKWALSK YFNDFGVILG 200
    FTGLEFDKSC DGMKILDYAD FFGSVINKEI VNTYVDRDVK LLKALKTAID 250
    REENQFSKRP TLSLYGTKYF HRVWEEVCKT VFSHVNEYVK KISRPNWINF 300
    TDIEVNKEKK TLEPDIIKAF EYRSKEYFLI LDAKYYNINF DGKKLEGNPG 350
    VEDITKQLLY DKALEKLSRG KTKHNAFLFP SSNSTNTFKV FGSVDFDFLD 400
    IAAVTLVYIS AEQVYNLYLE NKTFSTDDLF KFVSEINKSK KRHSVITSTL 450
    YGNMFLFTKR LSDKN 465
    Length:465
    Mass (Da):54,336
    Last modified:January 1, 1998 - v1
    Checksum:iDE93019E964B0E65
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB007637 Genomic DNA. Translation: BAA22755.1.
    AL009126 Genomic DNA. Translation: CAB12430.1.
    PIRiE69788.
    RefSeqiNP_388492.1. NC_000964.3.
    WP_003234050.1. NZ_CM000487.1.

    Genome annotation databases

    EnsemblBacteriaiCAB12430; CAB12430; BSU06110.
    GeneIDi939884.
    KEGGibsu:BSU06110.
    PATRICi18972858. VBIBacSub10457_0643.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB007637 Genomic DNA. Translation: BAA22755.1 .
    AL009126 Genomic DNA. Translation: CAB12430.1 .
    PIRi E69788.
    RefSeqi NP_388492.1. NC_000964.3.
    WP_003234050.1. NZ_CM000487.1.

    3D structure databases

    ProteinModelPortali O34303.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 224308.BSU06110.

    Protein family/group databases

    REBASEi 619. BsuMI.

    Proteomic databases

    PaxDbi O34303.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai CAB12430 ; CAB12430 ; BSU06110 .
    GeneIDi 939884.
    KEGGi bsu:BSU06110.
    PATRICi 18972858. VBIBacSub10457_0643.

    Organism-specific databases

    GenoListi BSU06110.

    Phylogenomic databases

    eggNOGi NOG15592.
    HOGENOMi HOG000080449.
    OMAi KERWISI.
    OrthoDBi EOG6PW23V.

    Enzyme and pathway databases

    BioCyci BSUB:BSU06110-MONOMER.

    Family and domain databases

    InterProi IPR018579. Restrct_endonuc_II_LlaJI.
    [Graphical view ]
    Pfami PF09563. RE_LlaJI. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Sequence analysis of the groESL-cotA region of the Bacillus subtilis genome, containing the restriction/modification system genes."
      Kasahara Y., Nakai S., Ogasawara N., Yata K., Sadaie Y.
      DNA Res. 4:335-339(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: 168 / Marburg / ATCC 6051 / DSM 10 / JCM 1465 / NBRC 13719 / NCIMB 3610 / VKM B-501.
    2. "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.
    3. "Restriction and modification in Bacillus subtilis Marburg 168: target sites and effects on plasmid transformation."
      Bron S., Janniere L., Ehrlich S.D.
      Mol. Gen. Genet. 211:186-189(1988) [PubMed] [Europe PMC] [Abstract]
      Cited for: DNA TARGET SEQUENCE.
      Strain: 168 / Marburg / ATCC 6051 / DSM 10 / JCM 1465 / NBRC 13719 / NCIMB 3610 / VKM B-501.
    4. "Molecular organization of intrinsic restriction and modification genes BsuM of Bacillus subtilis Marburg."
      Ohshima H., Matsuoka S., Asai K., Sadaie Y.
      J. Bacteriol. 184:381-389(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: DEVELOPMENTAL STAGE, INDUCTION, OPERON STRUCTURE, DISRUPTION PHENOTYPE.
      Strain: 168 / Marburg / ATCC 6051 / DSM 10 / JCM 1465 / NBRC 13719 / NCIMB 3610 / VKM B-501.

    Entry informationi

    Entry nameiYDJA_BACSU
    AccessioniPrimary (citable) accession number: O34303
    Secondary accession number(s): Q797C8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: January 1, 1998
    Last modified: October 1, 2014
    This is version 71 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

    Complete proteome, Reference proteome

    Documents

    1. Bacillus subtilis
      Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList

    External Data

    Dasty 3