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Protein

27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase

Gene

SPB1

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

Functioni

Required for proper assembly of pre-ribosomal particles during the biogenesis of the 60S ribosomal subunit. Specifically methylates the guanosine in position 2922 of the 25S rRNA at the stage of 27S pre-rRNA maturation. Methylates also the uridine in position 2921 in the absence of methylation of this residue guided by snoRNA snR52 at the stage of 35S pre-rRNA maturation.UniRule annotation3 Publications

Catalytic activityi

S-adenosyl-L-methionine + guanosine(2922) in 27S pre-rRNA = S-adenosyl-L-homocysteine + 2'-O-methylguanosine(2922) in 27S pre-rRNA.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei58S-adenosyl-L-methionine; via amide nitrogenUniRule annotation1
Binding sitei60S-adenosyl-L-methionine; via amide nitrogenUniRule annotation1
Binding sitei78S-adenosyl-L-methionineUniRule annotation1
Binding sitei94S-adenosyl-L-methionineUniRule annotation1
Binding sitei119S-adenosyl-L-methionineUniRule annotation1
Active sitei159Proton acceptorUniRule annotation1

GO - Molecular functioni

  • rRNA (guanine) methyltransferase activity Source: SGD
  • rRNA (uridine-2'-O-)-methyltransferase activity Source: SGD

GO - Biological processi

  • maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • rRNA methylation Source: SGD

Keywordsi

Molecular functionMethyltransferase, Transferase
Biological processRibosome biogenesis, rRNA processing
LigandS-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciYEAST:YCL054W-MONOMER
BRENDAi2.1.1.167 984

Names & Taxonomyi

Protein namesi
Recommended name:
27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase (EC:2.1.1.167)
Alternative name(s):
2'-O-ribose RNA methyltransferase SPB1UniRule annotation
AdoMet-dependent rRNA methyltransferase SPB1UniRule annotation
S-adenosyl-L-methionine-dependent methyltransferaseUniRule annotation
Suppressor of PAB1 protein 1
Gene namesi
Name:SPB1UniRule annotation
Ordered Locus Names:YCL054W
ORF Names:YCL431, YCL54W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome III

Organism-specific databases

EuPathDBiFungiDB:YCL054W
SGDiS000000559 SPB1

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
Mutagenesisi52D → A: Abolishes methyltransferase activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001556041 – 84127S pre-rRNA (guanosine(2922)-2'-O)-methyltransferaseAdd BLAST841

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei455PhosphoserineCombined sources1
Modified residuei464PhosphoserineCombined sources1
Modified residuei529PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP25582
PaxDbiP25582
PRIDEiP25582

PTM databases

iPTMnetiP25582

Interactioni

Subunit structurei

Component of the nucleolar and nucleoplasmic pre-60S ribosomal particle. Interacts with the snoRNA-associated proteins NOP1 and NOP58.UniRule annotation2 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi3093254 interactors.
DIPiDIP-1777N
IntActiP25582 23 interactors.
MINTiP25582
STRINGi4932.YCL054W

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
6ELZelectron microscopy3.30w1-841[»]
6EM5electron microscopy4.30w1-841[»]
ProteinModelPortaliP25582
SMRiP25582
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili360 – 389UniRule annotationAdd BLAST30

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi704 – 841Lys-richAdd BLAST138

Sequence similaritiesi

Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA methyltransferase RlmE family. SPB1 subfamily.UniRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

GeneTreeiENSGT00550000075004
HOGENOMiHOG000176256
KOiK14857
OMAiWFVQEEK
OrthoDBiEOG092C4T6A

Family and domain databases

HAMAPiMF_01547 RNA_methyltr_E, 1 hit
MF_03163 RNA_methyltr_E_SPB1, 1 hit
InterProiView protein in InterPro
IPR015507 rRNA-MeTfrase_E
IPR012920 rRNA_MeTfrase_Spb1_C
IPR024576 rRNA_MeTfrase_Spb1_DUF3381
IPR002877 rRNA_MeTrfase_FtsJ_dom
IPR029063 SAM-dependent_MTases
IPR028589 Spb1
PfamiView protein in Pfam
PF11861 DUF3381, 1 hit
PF01728 FtsJ, 1 hit
PF07780 Spb1_C, 1 hit
SUPFAMiSSF53335 SSF53335, 1 hit

Sequencei

Sequence statusi: Complete.

P25582-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGKTQKKNSK GRLDRYYYLA KEKGYRARSS FKIIQINEKY GHFLEKSKVV
60 70 80 90 100
IDLCAAPGSW CQVASKLCPV NSLIIGVDIV PMKPMPNVIT FQSDITTEDC
110 120 130 140 150
RSKLRGYMKT WKADTVLHDG APNVGLGWVQ DAFTQSQLTL QALKLAVENL
160 170 180 190 200
VVNGTFVTKI FRSKDYNKLI WVFQQLFEKV EATKPPASRN VSAEIFVVCK
210 220 230 240 250
GFKAPKRLDP RLLDPKEVFE ELPDGQQNME SKIYNPEKKV RKRQGYEEGD
260 270 280 290 300
NLLYHETSIL DFVRTEDPIS MLGEMNKFTI DENDHEWKIL KKLKQTTDEF
310 320 330 340 350
RSCIEDLKVL GKKDFKMILR WRKIAREILG IEVKDDAKTE IEVVPLTEEE
360 370 380 390 400
QIEKDLQGLQ EKQRLNVKRE RRRKNEMKQK ELQRMQMNMI TPTDIGIEAA
410 420 430 440 450
SLGKESLFNL KTAEKTGILN DLAKGKKRMI FTDDELAKDN DIYIDENIMI
460 470 480 490 500
KDKDSAADAD DLESELNAMY SDYKTRRSER DAKFRAKQAR GGDNEEEWTG
510 520 530 540 550
FNEGSLEKKE EEGKDYIEDN DDEGVEGDSD DDEAITNLIS KLKGQEGDHK
560 570 580 590 600
LSSKARMIFN DPIFNNVEPD LPVNTVNDGI MSSESVGDIS KLNKKRKHEE
610 620 630 640 650
MHQKQDEADS SDESSSDDSD FEIVANDNAS EEFDSDYDSE EEKNQTKKEK
660 670 680 690 700
HSRDIDIATV EAMTLAHQLA LGQKNKHDLV DEGFNRYTFR DTENLPDWFL
710 720 730 740 750
EDEKEHSKIN KPITKEAAMA IKEKIKAMNA RPIKKVAEAK ARKRMRAVAR
760 770 780 790 800
LEKIKKKAGL INDDSDKTEK DKAEEISRLM RKVTKKPKTK PKVTLVVASG
810 820 830 840
RNKGLAGRPK GVKGKYKMVD GVMKNEQRAL RRIAKKHHKK K
Length:841
Mass (Da):96,485
Last modified:May 30, 2000 - v2
Checksum:iD7A080299B0C7E24
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X59720 Genomic DNA Translation: CAA42391.1
BK006937 Genomic DNA Translation: DAA07432.1
PIRiS74280
RefSeqiNP_009877.1, NM_001178698.1

Genome annotation databases

EnsemblFungiiCAA42391; CAA42391; CAA42391
YCL054W; YCL054W; YCL054W
GeneIDi850304
KEGGisce:YCL054W

Similar proteinsi

Entry informationi

Entry nameiSPB1_YEAST
AccessioniPrimary (citable) accession number: P25582
Secondary accession number(s): D6VQW3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: May 30, 2000
Last modified: April 25, 2018
This is version 157 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome