protein coding gene - cdh1 (SPBC336.02) - 18S rRNA dimethylase Cdh1

Gene summary

Standard name: cdh1
Systematic ID: SPBC336.02
Product: 18S rRNA dimethylase Cdh1
Organism: Schizosaccharomyces pombe (fission yeast)
Synonyms: dim1
UniProt ID: Q9USU2
ORFeome ID: 41/41H06
Characterisation status: biological role inferred
Feature type: mRNA gene
Genomic location: chromosome II: 2736932..2738059 forward strand

Annotation

PBO:0091800 - 2.1.1.183

GO biological process

GO:0000462 - maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)

References:

GO_REF:0000024

GO:0031167 - rRNA methylation

References:

GO_REF:0000033

GO cellular component

GO:0072686 - mitotic spindle

References:

PMID:16823372

GO:0005730 - nucleolus

References:

PMID:16823372

GO:0005634 - nucleus

References:

PMID:16823372

GO molecular function

GO:0052909 - 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase activity

References:

GO_REF:0000024

Modification

MOD:00046 - O-phospho-L-serine

References:

MOD:01148 - ubiquitinylated lysine

References:

PMID:37970674

Qualitative gene expression

PomGeneEx:0000019 - protein level decreased

References:

PMID:39367033

PomGeneEx:0000027 - ribosomal density decreased

References:

PMID:33313903

PomGeneEx:0000012 - RNA level decreased

References:

PMID:33313903

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

References:

PMID:23101633

Single locus phenotype

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

References:

PMID:23697806

Genotypes:

cdh1delta

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

cdh1delta

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)

Warnings

PBO:0001338 - gene name conflict

Protein features

ID	Name	InterPro name	DB name
PF00398	RrnaAD	KsgA/Erm	PFAM
cd02440	AdoMet_MTases		CDD
PS01131	RRNA_A_DIMETH	rRNA_Ade_Mease_Trfase_CS	PROSITE_PATTERNS
PS51689	SAM_RNA_A_N6_MT	KsgA/Erm	PROSITE_PROFILES
SM00650	rADcneu6	rRNA_Ade_methylase_Trfase_N	SMART
G3DSA:1.10.8.480:FF:000002			FUNFAM
G3DSA:3.40.50.150:FF:000007			FUNFAM
SSF53335	S-adenosyl-L-methionine-dependent methyltransferases	SAM-dependent_MTases_sf	SUPERFAMILY
G3DSA:1.10.8.480			GENE3D
G3DSA:3.40.50.150	Vaccinia Virus protein VP39	SAM-dependent_MTases_sf	GENE3D
PTHR11727	DIMETHYLADENOSINE TRANSFERASE	KsgA/Erm	PANTHER
TIGR00755	ksgA	rRNA_adenine_dimethylase	NCBIFAM

Orthologs

DIMT1 (HGNC:30217) Homo sapiens
cdh1 (SJAG_02821) Schizosaccharomyces japonicus
DIM1 (YPL266W) Saccharomyces cerevisiae

References / Literature

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:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.
PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.: Strachan J et al. J Cell Sci 2023 Dec 01;136(23)
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
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: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: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: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:21511999 - Comparative functional genomics of the fission yeasts.: Rhind N et al. Science 2011 May 20;332(6032):930-6
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
PMID:28218250 - Chromatin remodeller Fun30 Fft3 induces nucleosome disassembly to facilitate RNA polymerase II elongation.: Lee J et al. Nat Commun 2017 Feb 20;8:14527
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:30726745 - Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.: Tay YD et al. Cell Rep 2019 Feb 05;26(6):1654-1667.e7
PMID:25375137 - Systematic analysis of the role of RNA-binding proteins in the regulation of RNA stability.: Hasan A et al. PLoS Genet 2014 Nov;10(11):e1004684
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
GO_REF:0000033 - Annotation inferences using phylogenetic trees