UniProtKB - P25582 (SPB1_YEAST)
Protein
27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase
Gene
SPB1
Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
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
- guanosine2922 in 27S pre-rRNA + S-adenosyl-L-methionine = 2'-O-methylguanosine2922 in 27S pre-rRNA + H+ + S-adenosyl-L-homocysteine1 PublicationEC:2.1.1.1671 Publication
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 58 | S-adenosyl-L-methionine; via amide nitrogenUniRule annotation | 1 | |
Binding sitei | 60 | S-adenosyl-L-methionine; via amide nitrogenUniRule annotation | 1 | |
Binding sitei | 78 | S-adenosyl-L-methionineUniRule annotation | 1 | |
Binding sitei | 94 | S-adenosyl-L-methionineUniRule annotation | 1 | |
Binding sitei | 119 | S-adenosyl-L-methionineUniRule annotation | 1 | |
Active sitei | 159 | Proton acceptorUniRule annotation | 1 |
GO - Molecular functioni
- RNA methyltransferase activity Source: GO_Central
- rRNA (guanine) methyltransferase activity Source: SGD
- rRNA (guanosine-2'-O-)-methyltransferase activity Source: UniProtKB-UniRule
- rRNA (uridine-2'-O-)-methyltransferase activity Source: SGD
GO - Biological processi
- enzyme-directed rRNA 2'-O-methylation Source: UniProtKB-UniRule
- 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
- RNA methylation Source: GO_Central
- rRNA methylation Source: SGD
Keywordsi
Molecular function | Methyltransferase, Transferase |
Biological process | Ribosome biogenesis, rRNA processing |
Ligand | S-adenosyl-L-methionine |
Enzyme and pathway databases
BRENDAi | 2.1.1.167, 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 |
Organismi | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) |
Taxonomic identifieri | 559292 [NCBI] |
Taxonomic lineagei | Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › |
Proteomesi |
|
Organism-specific databases
EuPathDBi | FungiDB:YCL054W |
SGDi | S000000559, SPB1 |
Subcellular locationi
Nucleus
- nucleolus UniRule annotation1 Publication
Nucleus
Other locations
- preribosome, large subunit precursor Source: SGD
Keywords - Cellular componenti
NucleusPathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 52 | D → A: Abolishes methyltransferase activity. 1 Publication | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000155604 | 1 – 841 | 27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferaseAdd BLAST | 841 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 455 | PhosphoserineCombined sources | 1 | |
Modified residuei | 464 | PhosphoserineCombined sources | 1 | |
Modified residuei | 529 | PhosphoserineCombined sources | 1 |
Keywords - PTMi
PhosphoproteinProteomic databases
MaxQBi | P25582 |
PaxDbi | P25582 |
PRIDEi | P25582 |
PTM databases
iPTMneti | P25582 |
Interactioni
Subunit structurei
Component of the nucleolar and nucleoplasmic pre-60S ribosomal particle.
Interacts with the snoRNA-associated proteins NOP1 and NOP58.
UniRule annotation2 PublicationsBinary interactionsi
Hide detailsP25582
With | #Exp. | IntAct |
---|---|---|
LOC1 [P43586] | 4 | EBI-17814,EBI-22906 |
NOC3 [Q07896] | 3 | EBI-17814,EBI-36093 |
NOP53 [Q12080] | 3 | EBI-17814,EBI-29395 |
RPF2 [P36160] | 6 | EBI-17814,EBI-15881 |
Protein-protein interaction databases
BioGRIDi | 30932, 62 interactors |
DIPi | DIP-1777N |
IntActi | P25582, 22 interactors |
MINTi | P25582 |
STRINGi | 4932.YCL054W |
Miscellaneous databases
RNActi | P25582, protein |
Family & Domainsi
Coiled coil
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Coiled coili | 360 – 389 | UniRule annotationAdd BLAST | 30 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 704 – 841 | Lys-richAdd BLAST | 138 |
Sequence similaritiesi
Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA methyltransferase RlmE family. SPB1 subfamily.UniRule annotation
Keywords - Domaini
Coiled coilPhylogenomic databases
eggNOGi | KOG1098, Eukaryota |
GeneTreei | ENSGT00550000075004 |
HOGENOMi | CLU_009422_8_1_1 |
OMAi | EILECCK |
Family and domain databases
HAMAPi | MF_01547, RNA_methyltr_E, 1 hit MF_03163, RNA_methyltr_E_SPB1, 1 hit |
InterProi | View 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-like |
Pfami | View protein in Pfam PF11861, DUF3381, 1 hit PF01728, FtsJ, 1 hit PF07780, Spb1_C, 1 hit |
SUPFAMi | SSF53335, SSF53335, 1 hit |
i Sequence
Sequence statusi: Complete.
P25582-1 [UniParc]FASTAAdd to basket
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
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | X59720 Genomic DNA Translation: CAA42391.1 BK006937 Genomic DNA Translation: DAA07432.1 |
PIRi | S74280 |
RefSeqi | NP_009877.1, NM_001178698.1 |
Genome annotation databases
EnsemblFungii | YCL054W_mRNA; YCL054W; YCL054W |
GeneIDi | 850304 |
KEGGi | sce:YCL054W |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | X59720 Genomic DNA Translation: CAA42391.1 BK006937 Genomic DNA Translation: DAA07432.1 |
PIRi | S74280 |
RefSeqi | NP_009877.1, NM_001178698.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
6ELZ | electron microscopy | 3.30 | w | 1-841 | [»] | |
6EM5 | electron microscopy | 4.30 | w | 1-841 | [»] | |
6YLX | electron microscopy | 3.90 | w | 1-841 | [»] | |
SMRi | P25582 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 30932, 62 interactors |
DIPi | DIP-1777N |
IntActi | P25582, 22 interactors |
MINTi | P25582 |
STRINGi | 4932.YCL054W |
PTM databases
iPTMneti | P25582 |
Proteomic databases
MaxQBi | P25582 |
PaxDbi | P25582 |
PRIDEi | P25582 |
Genome annotation databases
EnsemblFungii | YCL054W_mRNA; YCL054W; YCL054W |
GeneIDi | 850304 |
KEGGi | sce:YCL054W |
Organism-specific databases
EuPathDBi | FungiDB:YCL054W |
SGDi | S000000559, SPB1 |
Phylogenomic databases
eggNOGi | KOG1098, Eukaryota |
GeneTreei | ENSGT00550000075004 |
HOGENOMi | CLU_009422_8_1_1 |
OMAi | EILECCK |
Enzyme and pathway databases
BRENDAi | 2.1.1.167, 984 |
Miscellaneous databases
PROi | PR:P25582 |
RNActi | P25582, protein |
Family and domain databases
HAMAPi | MF_01547, RNA_methyltr_E, 1 hit MF_03163, RNA_methyltr_E_SPB1, 1 hit |
InterProi | View 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-like |
Pfami | View protein in Pfam PF11861, DUF3381, 1 hit PF01728, FtsJ, 1 hit PF07780, Spb1_C, 1 hit |
SUPFAMi | SSF53335, SSF53335, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | SPB1_YEAST | |
Accessioni | P25582Primary (citable) accession number: P25582 Secondary accession number(s): D6VQW3 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 1, 1992 |
Last sequence update: | May 30, 2000 | |
Last modified: | December 2, 2020 | |
This is version 178 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Fungal Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families - Yeast
Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD - Yeast chromosome III
Yeast (Saccharomyces cerevisiae) chromosome III: entries and gene names