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protein coding gene - pmt1 (SPBC19C2.02) - tRNA (cytosine-5-)-methyltransferase Pmt1

Gene summary

Standard name
pmt1
Systematic ID
SPBC19C2.02
Product
tRNA (cytosine-5-)-methyltransferase Pmt1
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
dnmt2
UniProt ID
P40999
ORFeome ID
32/32D02
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome II: 1674026..1675523 forward strand

Annotation

GO biological process

GO:0002946 - tRNA C5-cytosine methylation

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GO cellular component

GO:0005829 - cytosol

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GO:0005634 - nucleus

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GO molecular function

GO:0016427 - tRNA (cytidine) methyltransferase activity

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GO:0016428 - tRNA (cytidine-N5)-methyltransferase activity

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GO:0000049 - tRNA binding

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GO:0009008 - DNA-methyltransferase activity

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Qualitative gene expression

PomGeneEx:0000019 - protein level decreased

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PomGeneEx:0000021 - protein present

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PomGeneEx:0000011 - RNA level increased

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PomGeneEx:0000014 - RNA present

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Quantitative gene expression

PBO:0011963 - RNA level

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Single locus phenotype

FYPO:0003625 - abnormal microtubule cytoskeleton morphology during mitotic interphase

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Genotypes:

FYPO:0000121 - abnormal sporulation

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Genotypes:

FYPO:0001773 - abolished tRNA methyltransferase activity

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Genotypes:

FYPO:0001768 - abolished tRNA-Asp C38 methylation

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Genotypes:

FYPO:0007317 - decreased cytoplasmic translation

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Genotypes:

FYPO:0002056 - decreased mitochondrial translation

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Genotypes:

FYPO:0009094 - increased cell population growth on lysine and proline nitrogen source

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Genotypes:

FYPO:0001769 - increased tRNA-Asp C38 methylation

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Genotypes:

FYPO:0000233 - long cytoplasmic microtubules

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Genotypes:

FYPO:0000760 - normal mating

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Genotypes:

FYPO:0001147 - normal mating efficiency

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Genotypes:

FYPO:0001839 - normal minichromosome loss

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Genotypes:

FYPO:0000579 - normal spore germination

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Genotypes:

FYPO:0000590 - normal sporulation

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Genotypes:

FYPO:0001764 - normal tRNA-Asp C48, C49, C60, C61 and C62 methylation

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Genotypes:

FYPO:0001315 - normal vegetative cell morphology

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Genotypes:

FYPO:0001420 - normal vegetative cell population growth rate

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Genotypes:

FYPO:0000096 - sensitive to cadmium

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Genotypes:

FYPO:0001719 - sensitive to lithium

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Genotypes:

FYPO:0009086 - sensitive to lithium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0007924 - sensitive to potassium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0003656 - sensitive to vanadate

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Genotypes:

FYPO:0002060 - viable vegetative cell population

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Genotypes:

FYPO:0002197 - viable vegetative cell with abnormal cell shape

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Genotypes:

FYPO:0002177 - viable vegetative cell with normal cell morphology

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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:0000055 - no apparent S. cerevisiae ortholog

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

Protein features

IDNameInterPro nameDB name
PF00145DNA_methylaseC5_MeTfrasePFAM
cd00315Cyt_C5_DNA_methylaseCDD
PS00095C5_MTASE_2C5_meth_CSPROSITE_PATTERNS
PS51679SAM_MT_C5C5_MeTfrasePROSITE_PROFILES
PR00105C5METTRFRASEC5_MeTfrasePRINTS
SSF53335S-adenosyl-L-methionine-dependent methyltransferasesSAM-dependent_MTases_sfSUPERFAMILY
G3DSA:3.40.50.150Vaccinia Virus protein VP39SAM-dependent_MTases_sfGENE3D
G3DSA:3.90.120.10DNA Methylase, subunit A, domain 2GENE3D
PTHR46098TRNA (CYTOSINE(38)-C(5))-METHYLTRANSFERASEC5-MTasePANTHER
CoilCoilCOILS
TIGR00675dcmC5_MeTfraseNCBIFAM

Orthologs

References / Literature

PMID:22681890 - Hierarchical modularity and the evolution of genetic interactomes across species.
Ryan CJ et al. Mol Cell 2012 Jun 08;46(5):691-704
PMID:29259000 - Genes Important for Schizosaccharomyces pombe Meiosis Identified Through a Functional Genomics Screen.
Blyth J et al. Genetics 2018 Feb;208(2):589-603
PMID:23074192 - Pmt1, a Dnmt2 homolog in Schizosaccharomyces pombe, mediates tRNA methylation in response to nutrient signaling.
Becker M et al. Nucleic Acids Res 2012 Dec;40(22):11648-58
PMID:25373780 - A genomic Multiprocess survey of machineries that control and link cell shape, microtubule organization, and cell-cycle progression.
Graml V et al. Dev Cell 2014 Oct 27;31(2):227-239
PMID:28208632 - Cross-Talk between Dnmt2-Dependent tRNA Methylation and Queuosine Modification.
Ehrenhofer-Murray AE Biomolecules 2017 Feb 10;7(1)
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:37787768 - Broad functional profiling of fission yeast proteins using phenomics and machine learning.
Rodríguez-López M et al. Elife 2023 Oct 03;12
PMID:7862522 - The fission yeast gene pmt1+ encodes a DNA methyltransferase homologue.
Wilkinson CR et al. Nucleic Acids Res 1995 Jan 25;23(2):203-10
PMID:29892076 - Structural insights into the stimulation of S. pombe Dnmt2 catalytic efficiency by the tRNA nucleoside queuosine.
Johannsson S et al. Sci Rep 2018 Jun 11;8(1):8880
PMID:24711368 - The Dnmt2 RNA methyltransferase homolog of Geobacter sulfurreducens specifically methylates tRNA-Glu.
Shanmugam R et al. Nucleic Acids Res 2014 Jun;42(10):6487-96
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: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
PMID:16537923 - Sterol regulatory element binding protein is a principal regulator of anaerobic gene expression in fission yeast.
Todd BL et al. Mol Cell Biol 2006 Apr;26(7):2817-31
PMID:26424849 - Dynamic modulation of Dnmt2-dependent tRNA methylation by the micronutrient queuine.
Müller M et al. Nucleic Acids Res 2015 Dec 15;43(22):10952-62
PMID:30715423 - Queuine links translational control in eukaryotes to a micronutrient from bacteria.
Müller M et al. Nucleic Acids Res 2019 Apr 23;47(7):3711-3727
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:8636983 - Activation of a yeast pseudo DNA methyltransferase by deletion of a single amino acid.
Pinarbasi E et al. J Mol Biol 1996 Apr 12;257(4):804-13
PMID:9628362 - Substitution of the conserved phenylalanine in the S-adenosyl-L-methionine binding site of M.MspI with tyrosine modifies the kinetic properties of the enzyme.
Pinarbasi E et al. Biol Chem 1998;379(4-5):591-4
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: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