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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: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

ATP-binding RNA helicase involved in the biogenesis of 60S ribosomal subunits (PubMed:2408148, PubMed:25579579). Binds 90S pre-ribosomal particles and dissociates from pre-60S ribosomal particles after processing of 27SB pre-rRNA (PubMed:21825077). 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 (PubMed:9769101). Also required for recruitment of NOG2 to pre-ribosomes (PubMed:22735702).5 Publications

Miscellaneous

Present with 5740 molecules/cell in log phase SD medium.1 Publication

Catalytic activityi

ATP + H2O = ADP + phosphate.1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi51 – 58ATPPROSITE-ProRule annotation8

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • ATP-dependent RNA helicase activity Source: SGD
  • RNA binding Source: UniProtKB-KW

GO - Biological processi

  • assembly of large subunit precursor of preribosome Source: SGD
  • maturation of LSU-rRNA Source: SGD
  • ribosomal large subunit assembly Source: SGD
  • RNA secondary structure unwinding Source: GO_Central

Keywordsi

Molecular functionHelicase, Hydrolase, RNA-binding
Biological processRibosome biogenesis, rRNA processing
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-30452-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
ATP-dependent rRNA helicase SPB4Curated (EC:3.6.4.131 Publication)
Alternative name(s):
Suppressor of PAB1 protein 41 Publication
Gene namesi
Name:SPB41 Publication
Ordered Locus Names:YFL002CImported
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome VI

Organism-specific databases

EuPathDBiFungiDB:YFL002C.
SGDiS000001894. SPB4.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi360R → G: Leads to accumulation of 35S and 27SB pre-rRNAs and a net 40S ribosomal subunit defect. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000550651 – 606ATP-dependent rRNA helicase SPB4Add BLAST606

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei254PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP25808.
PRIDEiP25808.

PTM databases

iPTMnetiP25808.

Interactioni

Subunit structurei

Component of pre-60S ribosomal complexes.4 Publications

Protein-protein interaction databases

BioGridi31147. 667 interactors.
DIPiDIP-5423N.
IntActiP25808. 45 interactors.
MINTiMINT-525740.
STRINGi4932.YFL002C.

Structurei

3D structure databases

ProteinModelPortaliP25808.
SMRiP25808.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini38 – 224Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST187
Domaini248 – 404Helicase C-terminalPROSITE-ProRule annotationAdd BLAST157

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili539 – 582Sequence analysisAdd BLAST44

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi7 – 35Q motifCuratedAdd BLAST29
Motifi172 – 175DEAD boxCurated4

Domaini

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

Sequence similaritiesi

Keywords - Domaini

Coiled coil

Phylogenomic databases

GeneTreeiENSGT00550000074969.
HOGENOMiHOG000268803.
InParanoidiP25808.
KOiK14809.
OMAiSSPHVHC.
OrthoDBiEOG092C1VLP.

Family and domain databases

InterProiView protein in InterPro
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.
PfamiView protein in Pfam
PF00270. DEAD. 1 hit.
PF13959. DUF4217. 1 hit.
PF00271. Helicase_C. 1 hit.
SMARTiView protein in SMART
SM00487. DEXDc. 1 hit.
SM01178. DUF4217. 1 hit.
SM00490. HELICc. 1 hit.
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiView protein in PROSITE
PS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.

Sequencei

Sequence statusi: Complete.

P25808-1 [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:
EMBLi
GenBanki
DDBJi
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

EnsemblFungiiBAA09238; BAA09238; BAA09238.
YFL002C; YFL002C; YFL002C.
GeneIDi850549.
KEGGisce:YFL002C.

Similar proteinsi

Entry informationi

Entry nameiSPB4_YEAST
AccessioniPrimary (citable) accession number: P25808
Secondary accession number(s): D6VTM9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: May 1, 1992
Last modified: September 27, 2017
This is version 162 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

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