ATP-dependent RNA helicase DBP8 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P38719 (DBP8_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified May 29, 2013. Version 123. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
ATP-dependent RNA helicase DBP8
EC=3.6.4.13

Alternative name(s):
DEAD box protein 8

Gene names

Name:	DBP8
Ordered Locus Names:	YHR169W

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces ›

Protein attributes

Sequence length	431 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	ATP-binding RNA helicase involved in 40S ribosomal subunit biogenesis and is required for the normal formation of 18S rRNAs through pre-rRNA processing at A0, A1 and A2 sites. Required for vegetative growth. Ref.3 Ref.6
Catalytic activity	ATP + H₂O = ADP + phosphate.
Subunit structure	Interacts with ESF2. Ref.6
Subcellular location	Nucleus › nucleolus Ref.3 Ref.4.
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 3500 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the DEAD box helicase family. DDX49/DBP8 subfamily. Contains 1 helicase ATP-binding domain. Contains 1 helicase C-terminal domain.
Biophysicochemical properties	pH dependence: Optimum pH is 7.4. Ref.6 Temperature dependence: Optimum temperature is 30 degrees Celsius.

Ontologies

Keywords
Biological process	Ribosome biogenesis rRNA processing
Cellular component	Nucleus
Ligand	ATP-binding Nucleotide-binding RNA-binding
Molecular function	Helicase Hydrolase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Inferred from mutant phenotype Ref.3. Source: SGD endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Inferred from mutant phenotype Ref.3. Source: SGD endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Inferred from mutant phenotype Ref.3. Source: SGD
Cellular_component	90S preribosome Inferred from direct assay PubMed 12150911. Source: SGD nucleolus Inferred from direct assay Ref.3. Source: SGD
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW ATP-dependent RNA helicase activity Inferred from mutant phenotype Ref.3. Source: SGD RNA binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 431

431

ATP-dependent RNA helicase DBP8

PRO_0000055038

Regions

Domain

33 – 209

177

Helicase ATP-binding

Domain

242 – 389

148

Helicase C-terminal

Nucleotide binding

46 – 53

ATP

Motif

2 – 30

Q motif

Motif

155 – 158

DEAD box

Experimental info

Mutagenesis

51 – 52

GK → AA in DBP8-1; loss of activity. Ref.6

Mutagenesis

K → A or R: Decreases ATPase activity in vitro. Ref.6

Mutagenesis

155 – 156

DE → AA in DBP8-2; loss of activity. Ref.6

Mutagenesis

155

D → A: Decreases ATPase activity in vitro. Ref.6

Mutagenesis

188 – 190

TAT → AAA in DBP8-3; severely affects growth. Ref.3

Mutagenesis

341 – 342

RS → AA in DBP8-4; no effect on growth.

Sequences

Sequence

Length

Mass (Da)

Tools

P38719 [UniParc].

Last modified February 1, 1995. Version 1.
Checksum: B0451EB85247372C
Show »

FASTA

431

47,878

        10         20         30         40         50         60 
MADFKSLGLS KWLTESLRAM KITQPTAIQK ACIPKILEGR DCIGGAKTGS GKTIAFAGPM 

        70         80         90        100        110        120 
LTKWSEDPSG MFGVVLTPTR ELAMQIAEQF TALGSSMNIR VSVIVGGESI VQQALDLQRK 

       130        140        150        160        170        180 
PHFIIATPGR LAHHIMSSGD DTVGGLMRAK YLVLDEADIL LTSTFADHLA TCISALPPKD 

       190        200        210        220        230        240 
KRQTLLFTAT ITDQVKSLQN APVQKGKPPL FAYQVESVDN VAIPSTLKIE YILVPEHVKE 

       250        260        270        280        290        300 
AYLYQLLTCE EYENKTAIIF VNRTMTAEIL RRTLKQLEVR VASLHSQMPQ QERTNSLHRF 

       310        320        330        340        350        360 
RANAARILIA TDVASRGLDI PTVELVVNYD IPSDPDVFIH RSGRTARAGR IGDAISFVTQ 

       370        380        390        400        410        420 
RDVSRIQAIE DRINKKMTET NKVHDTAVIR KALTKVTKAK RESLMAMQKE NFGERKRQQK 

       430 
KKQNDGKSLR S

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete nucleotide sequence of Saccharomyces cerevisiae chromosome VIII." Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Dover J., Du Z., Favello A., Fulton L., Gattung S., Geisel C., Kirsten J., Kucaba T., Hillier L.W., Jier M., Johnston L., Langston Y., Latreille P. Vaudin M. Science 265:2077-2082(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[3]	"Characterization and mutational analysis of yeast Dbp8p, a putative RNA helicase involved in ribosome biogenesis." Daugeron M.-C., Linder P. Nucleic Acids Res. 29:1144-1155(2001) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION, MUTAGENESIS OF 51-GLY-LYS-52; 155-ASP-GLU-156; 188-THR--THR-190 AND 341-ARG-SER-342.
[4]	"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].
[5]	"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].
[6]	"The nucleolar protein Esf2 interacts directly with the DExD/H box RNA helicase, Dbp8, to stimulate ATP hydrolysis." Granneman S., Lin C., Champion E.A., Nandineni M.R., Zorca C., Baserga S.J. Nucleic Acids Res. 34:3189-3199(2006) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, BIOPHYSICOCHEMICAL PROPERTIES, INTERACTION WITH ESF2, MUTAGENESIS OF LYS-52 AND ASP-155.
+	Additional computationally mapped references.

Web resources

RNA helicases from the baker's yeast Saccharomyces cerevisiae

Cross-references

Sequence databases
EMBL GenBank DDBJ	U00027 Genomic DNA. Translation: AAB68014.1. BK006934 Genomic DNA. Translation: DAA06862.1.
PIR	S48908.
RefSeq	NP_012039.1. NM_001179300.1.
3D structure databases
ProteinModelPortal	P38719.
SMR	P38719. Positions 4-404.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-5628N.
IntAct	P38719. 73 interactions.
MINT	MINT-485349.
STRING	4932.YHR169W.
Proteomic databases
PaxDb	P38719.
PeptideAtlas	P38719.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YHR169W; YHR169W; YHR169W.
GeneID	856574.
KEGG	sce:YHR169W.
Organism-specific databases
CYGD	YHR169w.
SGD	S000001212. DBP8.
Phylogenomic databases
eggNOG	COG0513.
GeneTree	ENSGT00700000105515.
HOGENOM	HOG000268802.
KO	K14778.
OMA	FRNLCAI.
OrthoDB	EOG4PP1RW.
Enzyme and pathway databases
BioCyc	YEAST:G3O-31203-MONOMER.
Gene expression databases
Genevestigator	P38719.
GermOnline	YHR169W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR011545. DNA/RNA_helicase_DEAD/DEAH_N. IPR014001. Helicase_ATP-bd. IPR001650. Helicase_C. IPR027417. P-loop_NTPase. IPR014014. RNA_helicase_DEAD_Q_motif. [Graphical view]
Pfam	PF00270. DEAD. 1 hit. PF00271. Helicase_C. 1 hit. [Graphical view]
SMART	SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. [Graphical view]
SUPFAM	SSF52540. SSF52540. 1 hit.
PROSITE	PS00039. DEAD_ATP_HELICASE. False negative. PS51192. HELICASE_ATP_BIND_1. 1 hit. PS51194. HELICASE_CTER. 1 hit. PS51195. Q_MOTIF. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	982426.

Entry information

Entry name

DBP8_YEAST

Accession

Primary (citable) accession number: P38719
Secondary accession number(s): D3DLB8

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 1, 1995
Last modified:	May 29, 2013
This is version 123 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

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

Yeast chromosome VIII

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

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Experimental info

Sequences

References

Web resources

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents