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protein coding gene - spb1 (SPAC1687.11) - ribosome bigenesis rRNA methyltransferase Spb1

Gene summary

Standard name
spb1
Systematic ID
SPAC1687.11
Product
ribosome bigenesis rRNA methyltransferase Spb1
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
pmt2
UniProt ID
O42832
ORFeome ID
38/38G06
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome I: 922281..925133 forward strand

Annotation

GO biological process

GO:1902626 - assembly of large subunit precursor of preribosome

References:

GO:0000466 - maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)

References:

GO:0000463 - maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)

References:

GO:0000451 - rRNA 2'-O-methylation

References:

GO cellular component

GO:0005730 - nucleolus

References:

GO:0005634 - nucleus

References:

GO:0030684 - preribosome

References:

GO:0030687 - preribosome, large subunit precursor

References:

GO molecular function

GO:0070039 - rRNA (guanosine-2'-O-ribose)-methyltransferase activity

References:

GO:0008650 - rRNA (uridine-2'-O-ribose)-methyltransferase activity

References:

Modification

MOD:00046 - O-phospho-L-serine

References:

MOD:00047 - O-phospho-L-threonine

References:

Qualitative gene expression

PomGeneEx:0000019 - protein level decreased

References:

PomGeneEx:0000027 - ribosomal density decreased

References:

PomGeneEx:0000012 - RNA level decreased

References:

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0000311 - inviable after spore germination with normal, unseptated germ tube morphology

References:

Genotypes:

FYPO:0002151 - inviable spore

References:

Genotypes:

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

Taxonomic conservation

PBO:0011067 - conserved in bacteria

PBO:0011065 - conserved in eukaryotes

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

PBO:0006222 - predominantly single copy (one to one)

Protein features

IDNameInterPro nameDB name
PF01728FtsJRNA_MeTrfase_FtsJ_domPfam
PF07780Spb1_CrRNA_MeTfrase_SPB1-like_CPfam
PF11861DUF3381rRNA_MeTfrase_Spb1_DUF3381Pfam
G3DSA:3.40.50.150:FF:000004CATH-FunFam
G3DSA:3.40.50.150SAM-dependent_MTases_sfCATH-Gene3D
SSF53335SAM-dependent_MTases_sfSUPERFAMILY
PTHR10920rRNA-MeTfrase_EPANTHER
CoilCOILS
MF_01547RNA_methyltr_ErRNA-MeTfrase_EHAMAP
MF_03163RNA_methyltr_E_SPB1SPB1-likeHAMAP
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Negative-Polyelectrolytedisorder_predictionMobiDB-Negative-Polyelectrolyte
mobidb-lite-Polyampholytedisorder_predictionMobiDB-Polyampholyte
mobidb-lite-Positive-Polyelectrolytedisorder_predictionMobiDB-Positive-Polyelectrolyte

Orthologs

References / Literature

PMID:25720772 - Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.
Kettenbach AN et al. Mol Cell Proteomics 2015 May;14(5):1275-87
PMID:33313903 - Ribosome profiling reveals ribosome stalling on tryptophan codons and ribosome queuing upon oxidative stress in fission yeast.
Rubio A et al. Nucleic Acids Res 2021 Jan 11;49(1):383-399
PMID:33823663 - A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans.
Halova L et al. Open Biol 2021 Apr;11(4):200405
PMID:38051102 - Fission Yeast TORC1 Promotes Cell Proliferation through Sfp1, a Transcription Factor Involved in Ribosome Biogenesis.
Tai YT et al. Mol Cell Biol 2023 Dec 05;:1-18
GO_REF:0000104 - Electronic Gene Ontology annotations created by transferring manual GO annotations between related proteins based on shared sequence features.
PMID:18257517 - Phosphoproteome analysis of fission yeast.
Wilson-Grady JT et al. J Proteome Res 2008 Mar;7(3):1088-97
PMID:39367033 - Quantitative proteomics and phosphoproteomics profiling of meiotic divisions in the fission yeast Schizosaccharomyces pombe.
Sivakova B et al. Sci Rep 2024 Oct 04;14(1):23105
PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.
Marguerat S et al. Cell 2012 Oct 26;151(3):671-83
PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.
Hayles J et al. Open Biol 2013 May 22;3(5):130053
PMID:21712547 - Mitotic substrates of the kinase aurora with roles in chromatin regulation identified through quantitative phosphoproteomics of fission yeast.
Koch A et al. Sci Signal 2011 Jun 28;4(179):rs6
PMID:10397757 - Isolated mammalian and Schizosaccharomyces pombe ran-binding domains rescue S. pombe sbp1 (RanBP1) genomic mutants.
Novoa I et al. Mol Biol Cell 1999 Jul;10(7):2175-90
PMID:21436456 - Clr4/Suv39 and RNA quality control factors cooperate to trigger RNAi and suppress antisense RNA.
Zhang K et al. Science 2011 Mar 25;331(6024):1624-7
PMID:24763107 - Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast).
Carpy A et al. Mol Cell Proteomics 2014 Aug;13(8):1925-36
PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.
Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7
GO_REF:0000108 - Automatic assignment of GO terms using logical inference, based on on inter-ontology links.
PMID:31064814 - Proximity-dependent biotinylation mediated by TurboID to identify protein-protein interaction networks in yeast.
Larochelle M et al. J Cell Sci 2019 May 31;132(11)
PMID:36423630 - Chromatin localization of nucleophosmin organizes ribosome biogenesis.
Ugolini I et al. Mol Cell 2022 Dec 01;82(23):4443-4457.e9
PMID:22508988 - Separate domains of fission yeast Cdk9 (P-TEFb) are required for capping enzyme recruitment and primed (Ser7-phosphorylated) Rpb1 carboxyl-terminal domain substrate recognition.
St Amour CV et al. Mol Cell Biol 2012 Jul;32(13):2372-83
PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.
Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6