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P20447 (DBP3_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 134. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
ATP-dependent RNA helicase DBP3

EC=3.6.4.13
Alternative name(s):
DEAD box protein 3
Helicase CA3
Gene names
Name:DBP3
Ordered Locus Names:YGL078C
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length523 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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. Ref.6

Catalytic activity

ATP + H2O = ADP + phosphate.

Subcellular location

Nucleusnucleolus Ref.6 Ref.7.

Domain

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

Miscellaneous

Present with 38900 molecules/cell in log phase SD medium.

Sequence similarities

Belongs to the DEAD box helicase family. DDX5/DBP2 subfamily.

Contains 1 helicase ATP-binding domain.

Contains 1 helicase C-terminal domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 523523ATP-dependent RNA helicase DBP3
PRO_0000055017

Regions

Domain143 – 315173Helicase ATP-binding
Domain344 – 493150Helicase C-terminal
Nucleotide binding156 – 1638ATP By similarity
Motif114 – 14027Q motif
Motif262 – 2654DEAD box

Experimental info

Sequence conflict4411E → A no nucleotide entry Ref.5
Sequence conflict4441V → I no nucleotide entry Ref.5

Sequences

Sequence LengthMass (Da)Tools
P20447 [UniParc].

Last modified October 1, 1996. Version 2.
Checksum: C198CF4E8D5BAFAA

FASTA52358,827
        10         20         30         40         50         60 
MTKEEIADKK RKVVDEEVIE KKKSKKHKKD KKDKKEKKDK KHKKHKKEKK GEKEVEVPEK 

        70         80         90        100        110        120 
ESEKKPEPTS AVASEFYVQS EALTSLPQSD IDEYFKENEI AVEDSLDLAL RPLLSFDYLS 

       130        140        150        160        170        180 
LDSSIQAEIS KFPKPTPIQA VAWPYLLSGK DVVGVAETGS GKTFAFGVPA ISHLMNDQKK 

       190        200        210        220        230        240 
RGIQVLVISP TRELASQIYD NLIVLTDKVG MQCCCVYGGV PKDEQRIQLK KSQVVVATPG 

       250        260        270        280        290        300 
RLLDLLQEGS VDLSQVNYLV LDEADRMLEK GFEEDIKNII RETDASKRQT LMFTATWPKE 

       310        320        330        340        350        360 
VRELASTFMN NPIKVSIGNT DQLTANKRIT QIVEVVDPRG KERKLLELLK KYHSGPKKNE 

       370        380        390        400        410        420 
KVLIFALYKK EAARVERNLK YNGYNVAAIH GDLSQQQRTQ ALNEFKSGKS NLLLATDVAA 

       430        440        450        460        470        480 
RGLDIPNVKT VINLTFPLTV EDYVHRIGRT GRAGQTGTAH TLFTEQEKHL AGGLVNVLNG 

       490        500        510        520 
ANQPVPEDLI KFGTHTKKKE HSAYGSFFKD VDLTKKPKKI TFD 

« Hide

References

« Hide 'large scale' references
[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. expand/collapse author list , 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]"The reference genome sequence of Saccharomyces cerevisiae: Then and now."
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.
G3 (Bethesda) 4:389-398(2014) [PubMed] [Europe PMC] [Abstract]
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]"Global analysis of protein localization in budding yeast."
Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K.
Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[8]"Global analysis of protein expression in yeast."
Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S.
Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[9]"N-terminal acetylome analyses and functional insights of the N-terminal acetyltransferase NatB."
Van Damme P., Lasa M., Polevoda B., Gazquez C., Elosegui-Artola A., Kim D.S., De Juan-Pardo E., Demeyer K., Hole K., Larrea E., Timmerman E., Prieto J., Arnesen T., Sherman F., Gevaert K., Aldabe R.
Proc. Natl. Acad. Sci. U.S.A. 109:12449-12454(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
M80437 Genomic DNA. Translation: AAA73137.1.
Z72600 Genomic DNA. Translation: CAA96783.1.
BK006941 Genomic DNA. Translation: DAA08027.1.
PIRS30805.
RefSeqNP_011437.3. NM_001180943.3.

3D structure databases

ProteinModelPortalP20447.
SMRP20447. Positions 90-489.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid33172. 115 interactions.
DIPDIP-2668N.
IntActP20447. 10 interactions.
MINTMINT-1164200.
STRING4932.YGL078C.

Proteomic databases

MaxQBP20447.
PaxDbP20447.
PeptideAtlasP20447.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYGL078C; YGL078C; YGL078C.
GeneID852802.
KEGGsce:YGL078C.

Organism-specific databases

CYGDYGL078c.
SGDS000003046. DBP3.

Phylogenomic databases

eggNOGCOG0513.
GeneTreeENSGT00740000115544.
HOGENOMHOG000268804.
KOK14811.
OMAPIQSASW.
OrthoDBEOG7TJ3T2.

Enzyme and pathway databases

BioCycYEAST:G3O-30579-MONOMER.

Gene expression databases

GenevestigatorP20447.

Family and domain databases

Gene3D3.40.50.300. 2 hits.
InterProIPR011545. 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]
PfamPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMSSF52540. SSF52540. 1 hit.
PROSITEPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio972321.

Entry information

Entry nameDBP3_YEAST
AccessionPrimary (citable) accession number: P20447
Secondary accession number(s): D6VU66
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1991
Last sequence update: October 1, 1996
Last modified: June 11, 2014
This is version 134 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome VII

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

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

SIMILARITY comments

Index of protein domains and families