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P25808

- SPB4_YEAST

UniProt

P25808 - SPB4_YEAST

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Protein

ATP-dependent rRNA helicase SPB4

Gene

SPB4

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

ATP-binding RNA helicase involved in the biogenesis of 60S ribosomal subunits. Required for the normal formation of 18S rRNA through the processing of pre-rRNAs at sites A0, A1 and A2, and the normal formation of 25S and 5.8S rRNAs through the processing of pre-rRNAs at sites C1 and C2.2 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi51 – 588ATPPROSITE-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

GO - Biological processi

  1. assembly of large subunit precursor of preribosome Source: SGD
  2. ATP catabolic process Source: GOC
  3. maturation of LSU-rRNA Source: SGD
  4. ribosomal large subunit assembly Source: SGD
Complete GO annotation...

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-30452-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
ATP-dependent rRNA helicase SPB4 (EC:3.6.4.-)
Alternative name(s):
Suppressor of PAB1 protein 4
Gene namesi
Name:SPB4
Ordered Locus Names:YFL002C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome VI

Organism-specific databases

CYGDiYFL002c.
SGDiS000001894. SPB4.

Subcellular locationi

Nucleusnucleolus 2 Publications

GO - Cellular componenti

  1. 90S preribosome Source: SGD
  2. nucleolus Source: SGD
  3. nucleoplasm Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 606606ATP-dependent rRNA helicase SPB4PRO_0000055065Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei254 – 2541Phosphoserine1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP25808.
PaxDbiP25808.

Expressioni

Gene expression databases

GenevestigatoriP25808.

Interactioni

Protein-protein interaction databases

BioGridi31147. 378 interactions.
DIPiDIP-5423N.
IntActiP25808. 34 interactions.
MINTiMINT-525740.
STRINGi4932.YFL002C.

Structurei

3D structure databases

ProteinModelPortaliP25808.
SMRiP25808. Positions 18-429.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini38 – 224187Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini248 – 404157Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili539 – 58244Sequence AnalysisAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi7 – 3529Q motifAdd
BLAST
Motifi172 – 1754DEAD 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

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiCOG0513.
GeneTreeiENSGT00550000074969.
HOGENOMiHOG000268803.
InParanoidiP25808.
KOiK14809.
OMAiWDALTPP.
OrthoDBiEOG7FR7R5.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR025313. DUF4217.
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.
PF13959. DUF4217. 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.

P25808 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSKSLEWDNL GFSLLPWIRT GLDVMGFETM TPVQASTIPM LAGNKDVVVD
60 70 80 90 100
SVTGSGKTAA FVIPVLEKVV KEEANTSKFK KAHFHSLIIA PTRELSRQIE
110 120 130 140 150
SVVLSFLEHY PSDLFPIKCQ LLVGTNEATV RDDVSNFLRN RPQILIGTPG
160 170 180 190 200
RVLDFLQMPA VKTSACSMVV MDEADRLLDM SFIKDTEKIL RLLPKQRRTG
210 220 230 240 250
LFSATMRSAG SDIFKTGLRN PVRITVNSKN QAPSSLKLNY CVVNPAEKLQ
260 270 280 290 300
LLVSILNNYK FKKCIVYFPT CVSVSYFYSF IQYLGKRNIL VNEVEIFSLH
310 320 330 340 350
GKLQTSARTK TLTAFTDSLS NSVLFTTDVA ARGIDIPDVD LVIQLDPPTN
360 370 380 390 400
TDMFMHRCGR TGRANRVGKA ITFLNEGREE DFIPFMQVKN VELEELDLEV
410 420 430 440 450
KGITTNFYED FRNWILEDRD RFDKGVKAYV AFIKYYSNHS ATSIFRLQSL
460 470 480 490 500
DYVGIAKLYG LFRLPRMPEI TKYLATEKQE GIFPGNWLVD PPVNMDEYKY
510 520 530 540 550
KDKKREKERQ ETLKNISLIN DKKKLKSELK KKNLAWSDKT LTKERKLERK
560 570 580 590 600
EKMSLKRKAI EEELKAEELD ENAEEERIKE DWKEIVLQNK RKKVSSKAIQ

GNFDDL
Length:606
Mass (Da):69,422
Last modified:May 1, 1992 - v1
Checksum:iB2EC8B8B5E34AA10
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X16147 Genomic DNA. Translation: CAA34272.1.
D50617 Genomic DNA. Translation: BAA09238.1.
BK006940 Genomic DNA. Translation: DAA12439.1.
PIRiS14942.
RefSeqiNP_116654.1. NM_001179964.1.

Genome annotation databases

EnsemblFungiiYFL002C; YFL002C; YFL002C.
GeneIDi850549.
KEGGisce:YFL002C.

Cross-referencesi

Web resourcesi

RNA helicases from the baker's yeast Saccharomyces cerevisiae

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X16147 Genomic DNA. Translation: CAA34272.1 .
D50617 Genomic DNA. Translation: BAA09238.1 .
BK006940 Genomic DNA. Translation: DAA12439.1 .
PIRi S14942.
RefSeqi NP_116654.1. NM_001179964.1.

3D structure databases

ProteinModelPortali P25808.
SMRi P25808. Positions 18-429.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 31147. 378 interactions.
DIPi DIP-5423N.
IntActi P25808. 34 interactions.
MINTi MINT-525740.
STRINGi 4932.YFL002C.

Proteomic databases

MaxQBi P25808.
PaxDbi P25808.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YFL002C ; YFL002C ; YFL002C .
GeneIDi 850549.
KEGGi sce:YFL002C.

Organism-specific databases

CYGDi YFL002c.
SGDi S000001894. SPB4.

Phylogenomic databases

eggNOGi COG0513.
GeneTreei ENSGT00550000074969.
HOGENOMi HOG000268803.
InParanoidi P25808.
KOi K14809.
OMAi WDALTPP.
OrthoDBi EOG7FR7R5.

Enzyme and pathway databases

BioCyci YEAST:G3O-30452-MONOMER.

Miscellaneous databases

NextBioi 966324.
PROi P25808.

Gene expression databases

Genevestigatori P25808.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR011545. DEAD/DEAH_box_helicase_dom.
IPR025313. DUF4217.
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.
PF13959. DUF4217. 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

« Hide 'large scale' publications
  1. "Translation initiation and ribosomal biogenesis: involvement of a putative rRNA helicase and RPL46."
    Sachs A.B., Davis R.W.
    Science 247:1077-1079(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION.
  2. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204511 / S288c / AB972.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  4. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  5. "Spb4p, an essential putative RNA helicase, is required for a late step in the assembly of 60S ribosomal subunits in Saccharomyces cerevisiae."
    de la Cruz J., Kressler D., Rojo M., Tollervey D., Linder P.
    RNA 4:1268-1281(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION.
  6. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  7. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  8. "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry."
    Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L., Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F.
    Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-254, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiSPB4_YEAST
AccessioniPrimary (citable) accession number: P25808
Secondary accession number(s): D6VTM9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: May 1, 1992
Last modified: October 29, 2014
This is version 137 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 5740 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 VI
    Yeast (Saccharomyces cerevisiae) chromosome VI: entries and gene names

External Data

Dasty 3