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P20447

- DBP3_YEAST

UniProt

P20447 - DBP3_YEAST

Protein

ATP-dependent RNA helicase DBP3

Gene

DBP3

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 135 (01 Oct 2014)
      Sequence version 2 (01 Oct 1996)
      Previous versions | rss
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    Functioni

    ATP-dependent RNA helicase required for 60S ribosomal subunit synthesis. Involved in efficient pre-rRNA processing, predominantly at site A3, which is necessary for the normal formation of 25S and 5.8S rRNAs.1 Publication

    Catalytic activityi

    ATP + H2O = ADP + phosphate.

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi156 – 1638ATPPROSITE-ProRule annotation

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. ATP-dependent RNA helicase activity Source: SGD
    3. RNA binding Source: UniProtKB-KW
    4. RNA-dependent ATPase activity Source: SGD

    GO - Biological processi

    1. ATP catabolic process Source: GOC
    2. endonucleolytic cleavage in ITS1 upstream of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD

    Keywords - Molecular functioni

    Helicase, Hydrolase

    Keywords - Biological processi

    Ribosome biogenesis, rRNA processing

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding, RNA-binding

    Enzyme and pathway databases

    BioCyciYEAST:G3O-30579-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    ATP-dependent RNA helicase DBP3 (EC:3.6.4.13)
    Alternative name(s):
    DEAD box protein 3
    Helicase CA3
    Gene namesi
    Name:DBP3
    Ordered Locus Names:YGL078C
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome VII

    Organism-specific databases

    CYGDiYGL078c.
    SGDiS000003046. DBP3.

    Subcellular locationi

    Nucleusnucleolus 2 Publications

    GO - Cellular componenti

    1. nucleolus Source: SGD
    2. preribosome, large subunit precursor Source: SGD

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 523523ATP-dependent RNA helicase DBP3PRO_0000055017Add
    BLAST

    Proteomic databases

    MaxQBiP20447.
    PaxDbiP20447.
    PeptideAtlasiP20447.

    Expressioni

    Gene expression databases

    GenevestigatoriP20447.

    Interactioni

    Protein-protein interaction databases

    BioGridi33172. 115 interactions.
    DIPiDIP-2668N.
    IntActiP20447. 10 interactions.
    MINTiMINT-1164200.
    STRINGi4932.YGL078C.

    Structurei

    3D structure databases

    ProteinModelPortaliP20447.
    SMRiP20447. Positions 90-489.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini143 – 315173Helicase ATP-bindingPROSITE-ProRule annotationAdd
    BLAST
    Domaini344 – 493150Helicase C-terminalPROSITE-ProRule annotationAdd
    BLAST

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi114 – 14027Q motifAdd
    BLAST
    Motifi262 – 2654DEAD box

    Domaini

    The Q motif is unique to and characteristic of the DEAD box family of RNA helicases and controls ATP binding and hydrolysis.

    Sequence similaritiesi

    Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
    Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG0513.
    GeneTreeiENSGT00740000115544.
    HOGENOMiHOG000268804.
    KOiK14811.
    OMAiPIQSASW.
    OrthoDBiEOG7TJ3T2.

    Family and domain databases

    Gene3Di3.40.50.300. 2 hits.
    InterProiIPR011545. DNA/RNA_helicase_DEAD/DEAH_N.
    IPR014001. Helicase_ATP-bd.
    IPR001650. Helicase_C.
    IPR027417. P-loop_NTPase.
    IPR000629. RNA-helicase_DEAD-box_CS.
    IPR014014. RNA_helicase_DEAD_Q_motif.
    [Graphical view]
    PfamiPF00270. DEAD. 1 hit.
    PF00271. Helicase_C. 1 hit.
    [Graphical view]
    SMARTiSM00487. DEXDc. 1 hit.
    SM00490. HELICc. 1 hit.
    [Graphical view]
    SUPFAMiSSF52540. SSF52540. 1 hit.
    PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
    PS51192. HELICASE_ATP_BIND_1. 1 hit.
    PS51194. HELICASE_CTER. 1 hit.
    PS51195. Q_MOTIF. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P20447-1 [UniParc]FASTAAdd to Basket

    « Hide

    MTKEEIADKK RKVVDEEVIE KKKSKKHKKD KKDKKEKKDK KHKKHKKEKK    50
    GEKEVEVPEK ESEKKPEPTS AVASEFYVQS EALTSLPQSD IDEYFKENEI 100
    AVEDSLDLAL RPLLSFDYLS LDSSIQAEIS KFPKPTPIQA VAWPYLLSGK 150
    DVVGVAETGS GKTFAFGVPA ISHLMNDQKK RGIQVLVISP TRELASQIYD 200
    NLIVLTDKVG MQCCCVYGGV PKDEQRIQLK KSQVVVATPG RLLDLLQEGS 250
    VDLSQVNYLV LDEADRMLEK GFEEDIKNII RETDASKRQT LMFTATWPKE 300
    VRELASTFMN NPIKVSIGNT DQLTANKRIT QIVEVVDPRG KERKLLELLK 350
    KYHSGPKKNE KVLIFALYKK EAARVERNLK YNGYNVAAIH GDLSQQQRTQ 400
    ALNEFKSGKS NLLLATDVAA RGLDIPNVKT VINLTFPLTV EDYVHRIGRT 450
    GRAGQTGTAH TLFTEQEKHL AGGLVNVLNG ANQPVPEDLI KFGTHTKKKE 500
    HSAYGSFFKD VDLTKKPKKI TFD 523
    Length:523
    Mass (Da):58,827
    Last modified:October 1, 1996 - v2
    Checksum:iC198CF4E8D5BAFAA
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti441 – 4411E → A no nucleotide entry (PubMed:2406722)Curated
    Sequence conflicti444 – 4441V → I no nucleotide entry (PubMed:2406722)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M80437 Genomic DNA. Translation: AAA73137.1.
    Z72600 Genomic DNA. Translation: CAA96783.1.
    BK006941 Genomic DNA. Translation: DAA08027.1.
    PIRiS30805.
    RefSeqiNP_011437.3. NM_001180943.3.

    Genome annotation databases

    EnsemblFungiiYGL078C; YGL078C; YGL078C.
    GeneIDi852802.
    KEGGisce:YGL078C.

    Cross-referencesi

    Web resourcesi

    RNA helicases from the baker's yeast Saccharomyces cerevisiae

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M80437 Genomic DNA. Translation: AAA73137.1 .
    Z72600 Genomic DNA. Translation: CAA96783.1 .
    BK006941 Genomic DNA. Translation: DAA08027.1 .
    PIRi S30805.
    RefSeqi NP_011437.3. NM_001180943.3.

    3D structure databases

    ProteinModelPortali P20447.
    SMRi P20447. Positions 90-489.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 33172. 115 interactions.
    DIPi DIP-2668N.
    IntActi P20447. 10 interactions.
    MINTi MINT-1164200.
    STRINGi 4932.YGL078C.

    Proteomic databases

    MaxQBi P20447.
    PaxDbi P20447.
    PeptideAtlasi P20447.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YGL078C ; YGL078C ; YGL078C .
    GeneIDi 852802.
    KEGGi sce:YGL078C.

    Organism-specific databases

    CYGDi YGL078c.
    SGDi S000003046. DBP3.

    Phylogenomic databases

    eggNOGi COG0513.
    GeneTreei ENSGT00740000115544.
    HOGENOMi HOG000268804.
    KOi K14811.
    OMAi PIQSASW.
    OrthoDBi EOG7TJ3T2.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-30579-MONOMER.

    Miscellaneous databases

    NextBioi 972321.

    Gene expression databases

    Genevestigatori P20447.

    Family and domain databases

    Gene3Di 3.40.50.300. 2 hits.
    InterProi IPR011545. DNA/RNA_helicase_DEAD/DEAH_N.
    IPR014001. Helicase_ATP-bd.
    IPR001650. Helicase_C.
    IPR027417. P-loop_NTPase.
    IPR000629. RNA-helicase_DEAD-box_CS.
    IPR014014. RNA_helicase_DEAD_Q_motif.
    [Graphical view ]
    Pfami PF00270. DEAD. 1 hit.
    PF00271. Helicase_C. 1 hit.
    [Graphical view ]
    SMARTi SM00487. DEXDc. 1 hit.
    SM00490. HELICc. 1 hit.
    [Graphical view ]
    SUPFAMi SSF52540. SSF52540. 1 hit.
    PROSITEi PS00039. DEAD_ATP_HELICASE. 1 hit.
    PS51192. HELICASE_ATP_BIND_1. 1 hit.
    PS51194. HELICASE_CTER. 1 hit.
    PS51195. Q_MOTIF. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Johnston M., Nogae I.
      Submitted (DEC-1991) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    2. "Sequence analysis of 203 kilobases from Saccharomyces cerevisiae chromosome VII."
      Rieger M., Brueckner M., Schaefer M., Mueller-Auer S.
      Yeast 13:1077-1090(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. "The nucleotide sequence of Saccharomyces cerevisiae chromosome VII."
      Tettelin H., Agostoni-Carbone M.L., Albermann K., Albers M., Arroyo J., Backes U., Barreiros T., Bertani I., Bjourson A.J., Brueckner M., Bruschi C.V., Carignani G., Castagnoli L., Cerdan E., Clemente M.L., Coblenz A., Coglievina M., Coissac E.
      , Defoor E., Del Bino S., Delius H., Delneri D., de Wergifosse P., Dujon B., Durand P., Entian K.-D., Eraso P., Escribano V., Fabiani L., Fartmann B., Feroli F., Feuermann M., Frontali L., Garcia-Gonzalez M., Garcia-Saez M.I., Goffeau A., Guerreiro P., Hani J., Hansen M., Hebling U., Hernandez K., Heumann K., Hilger F., Hofmann B., Indge K.J., James C.M., Klima R., Koetter P., Kramer B., Kramer W., Lauquin G., Leuther H., Louis E.J., Maillier E., Marconi A., Martegani E., Mazon M.J., Mazzoni C., McReynolds A.D.K., Melchioretto P., Mewes H.-W., Minenkova O., Mueller-Auer S., Nawrocki A., Netter P., Neu R., Nombela C., Oliver S.G., Panzeri L., Paoluzi S., Plevani P., Portetelle D., Portillo F., Potier S., Purnelle B., Rieger M., Riles L., Rinaldi T., Robben J., Rodrigues-Pousada C., Rodriguez-Belmonte E., Rodriguez-Torres A.M., Rose M., Ruzzi M., Saliola M., Sanchez-Perez M., Schaefer B., Schaefer M., Scharfe M., Schmidheini T., Schreer A., Skala J., Souciet J.-L., Steensma H.Y., Talla E., Thierry A., Vandenbol M., van der Aart Q.J.M., Van Dyck L., Vanoni M., Verhasselt P., Voet M., Volckaert G., Wambutt R., Watson M.D., Weber N., Wedler E., Wedler H., Wipfli P., Wolf K., Wright L.F., Zaccaria P., Zimmermann M., Zollner A., Kleine K.
      Nature 387:81-84(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    4. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    5. "Identification of five putative yeast RNA helicase genes."
      Chang T.-H., Arenas J., Abelson J.
      Proc. Natl. Acad. Sci. U.S.A. 87:1571-1575(1990) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 260-448.
    6. "Dbp3p, a putative RNA helicase in Saccharomyces cerevisiae, is required for efficient pre-rRNA processing predominantly at site A3."
      Weaver P.L., Sun C., Chang T.-H.
      Mol. Cell. Biol. 17:1354-1365(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBCELLULAR LOCATION.
    7. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    8. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    9. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiDBP3_YEAST
    AccessioniPrimary (citable) accession number: P20447
    Secondary accession number(s): D6VU66
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1991
    Last sequence update: October 1, 1996
    Last modified: October 1, 2014
    This is version 135 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 38900 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 VII
      Yeast (Saccharomyces cerevisiae) chromosome VII: entries and gene names

    External Data

    Dasty 3