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P34220

- YBF5_YEAST

UniProt

P34220 - YBF5_YEAST

Protein

Deoxyribonuclease Tat-D

Gene

YBL055C

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 100 (01 Oct 2014)
      Sequence version 1 (01 Feb 1994)
      Previous versions | rss
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    Functioni

    Has both endo- and exonuclease activities. Incises double-stranded DNA without obvious specificity via its endonuclease activity and excises the DNA from the 3'-to 5'-end by its exonuclease activity. May have a role in apoptosis.1 Publication

    Cofactori

    Divalent metal cations. Has optimal activity with magnesium.1 Publication

    pH dependencei

    Optimum pH is 5.1 Publication

    Temperature dependencei

    Optimum temperature is 30 degrees Celsius.1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi185 – 1851Divalent metal cation 1By similarity
    Metal bindingi185 – 1851Divalent metal cation 2By similarity
    Metal bindingi226 – 2261Divalent metal cation 2By similarity
    Metal bindingi277 – 2771Divalent metal cation 2By similarity
    Metal bindingi327 – 3271Divalent metal cation 1By similarity

    GO - Molecular functioni

    1. 3'-5'-exodeoxyribonuclease activity Source: SGD
    2. endodeoxyribonuclease activity, producing 5'-phosphomonoesters Source: InterPro
    3. endonuclease activity Source: SGD
    4. metal ion binding Source: UniProtKB-KW

    GO - Biological processi

    1. apoptotic DNA fragmentation Source: SGD
    2. cellular response to oxidative stress Source: SGD
    3. DNA catabolic process, exonucleolytic Source: GOC

    Keywords - Molecular functioni

    Hydrolase, Nuclease

    Keywords - Ligandi

    Metal-binding

    Enzyme and pathway databases

    BioCyciYEAST:G3O-28953-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Deoxyribonuclease Tat-D (EC:3.1.21.-)
    Gene namesi
    Ordered Locus Names:YBL055C
    ORF Names:YBL0511, YBL0512
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome II

    Organism-specific databases

    CYGDiYBL055c.
    SGDiS000000151. YBL055C.

    Subcellular locationi

    Cytoplasm 1 Publication

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi185 – 1851E → A: Reduces enzymatic activities by 50%. 1 Publication
    Mutagenesisi325 – 3251E → A: Reduces enzymatic activities by 50%. 1 Publication
    Mutagenesisi327 – 3271D → A: Reduces enzymatic activities by almost 95%. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 418418Deoxyribonuclease Tat-DPRO_0000201994Add
    BLAST

    Proteomic databases

    MaxQBiP34220.
    PaxDbiP34220.
    PeptideAtlasiP34220.

    Expressioni

    Gene expression databases

    GenevestigatoriP34220.

    Interactioni

    Protein-protein interaction databases

    BioGridi32644. 24 interactions.
    MINTiMINT-2492113.
    STRINGi4932.YBL055C.

    Structurei

    3D structure databases

    ProteinModelPortaliP34220.
    SMRiP34220. Positions 35-417.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the TatD DNase family.Curated

    Phylogenomic databases

    eggNOGiCOG0084.
    GeneTreeiENSGT00720000108776.
    HOGENOMiHOG000201523.
    KOiK03424.
    OMAiRYIDIGI.
    OrthoDBiEOG7PZS7D.

    Family and domain databases

    InterProiIPR018228. DNase_TatD-rel_CS.
    IPR001130. TatD_family.
    [Graphical view]
    PANTHERiPTHR10060. PTHR10060. 1 hit.
    PfamiPF01026. TatD_DNase. 1 hit.
    [Graphical view]
    PROSITEiPS01090. TATD_2. 1 hit.
    PS01091. TATD_3. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P34220-1 [UniParc]FASTAAdd to Basket

    « Hide

    MWGILLKSSN KSCSRLWKPI LTQYYSMTST ATDSPLKYYD IGLNLTDPMF    50
    HGIYNGKQYH PADYVKLLER AAQRHVKNAL VTGSSIAESQ SAIELVSSVK 100
    DLSPLKLYHT IGVHPCCVNE FADASQGDKA SASIDNPSMD EAYNESLYAK 150
    VISNPSFAQG KLKELYDLMN QQAKPHDTSF RSIGEIGLDY DRFHYSSKEM 200
    QKVFFEEQLK ISCLNDKLSS YPLFLHMRSA CDDFVQILER FIAGFTDERD 250
    TFQLQKLGAS SSSGFYKFHP DRKLVVHSFT GSAIDLQKLL NLSPNIFIGV 300
    NGCSLRTEEN LAVVKQIPTE RLLLETDAPW CEIKRTHASF QYLAKYQEVR 350
    DFEYPAFKSV KKNKLADKLN AEELYMVKGR NEPCNMEQVA IVVSEVKDVD 400
    LATLIDTTWK TTCKIFGE 418
    Length:418
    Mass (Da):47,390
    Last modified:February 1, 1994 - v1
    Checksum:iF1107C1B8E94CAD1
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti278 – 2781S → P in AAT92645. (PubMed:17322287)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Z23261 Genomic DNA. Translation: CAA80792.1.
    Z35816 Genomic DNA. Translation: CAA84875.1.
    AY692626 Genomic DNA. Translation: AAT92645.1.
    BK006936 Genomic DNA. Translation: DAA07065.1.
    PIRiS39833.
    RefSeqiNP_009498.1. NM_001178295.1.

    Genome annotation databases

    EnsemblFungiiYBL055C; YBL055C; YBL055C.
    GeneIDi852225.
    KEGGisce:YBL055C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Z23261 Genomic DNA. Translation: CAA80792.1 .
    Z35816 Genomic DNA. Translation: CAA84875.1 .
    AY692626 Genomic DNA. Translation: AAT92645.1 .
    BK006936 Genomic DNA. Translation: DAA07065.1 .
    PIRi S39833.
    RefSeqi NP_009498.1. NM_001178295.1.

    3D structure databases

    ProteinModelPortali P34220.
    SMRi P34220. Positions 35-417.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 32644. 24 interactions.
    MINTi MINT-2492113.
    STRINGi 4932.YBL055C.

    Proteomic databases

    MaxQBi P34220.
    PaxDbi P34220.
    PeptideAtlasi P34220.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YBL055C ; YBL055C ; YBL055C .
    GeneIDi 852225.
    KEGGi sce:YBL055C.

    Organism-specific databases

    CYGDi YBL055c.
    SGDi S000000151. YBL055C.

    Phylogenomic databases

    eggNOGi COG0084.
    GeneTreei ENSGT00720000108776.
    HOGENOMi HOG000201523.
    KOi K03424.
    OMAi RYIDIGI.
    OrthoDBi EOG7PZS7D.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-28953-MONOMER.

    Miscellaneous databases

    NextBioi 970751.
    PROi P34220.

    Gene expression databases

    Genevestigatori P34220.

    Family and domain databases

    InterProi IPR018228. DNase_TatD-rel_CS.
    IPR001130. TatD_family.
    [Graphical view ]
    PANTHERi PTHR10060. PTHR10060. 1 hit.
    Pfami PF01026. TatD_DNase. 1 hit.
    [Graphical view ]
    PROSITEi PS01090. TATD_2. 1 hit.
    PS01091. TATD_3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Sequencing and functional analysis of a 32,560 bp segment on the left arm of yeast chromosome II. Identification of 26 open reading frames, including the KIP1 and SEC17 genes."
      Scherens B., el Bakkoury M., Vierendeels F., Dubois E., Messenguy F.
      Yeast 9:1355-1371(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    2. "Complete DNA sequence of yeast chromosome II."
      Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C.
      , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K.
      EMBO J. 13:5795-5809(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    5. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    6. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    7. "Search for apoptotic nucleases in yeast: role of Tat-D nuclease in apoptotic DNA degradation."
      Qiu J., Yoon J.H., Shen B.
      J. Biol. Chem. 280:15370-15379(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, COFACTOR, BIOPHYSICOCHEMICAL PROPERTIES, MUTAGENESIS OF GLU-185; GLU-325 AND ASP-327.

    Entry informationi

    Entry nameiYBF5_YEAST
    AccessioniPrimary (citable) accession number: P34220
    Secondary accession number(s): D6VPU5, Q6B2V4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1994
    Last sequence update: February 1, 1994
    Last modified: October 1, 2014
    This is version 100 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 1460 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
    2. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    3. Yeast chromosome II
      Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

    External Data

    Dasty 3