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protein coding gene - trm2 (SPAC4G8.07c) - tRNA (m5U54) methyltransferase Trm2

Gene summary

Standard name
trm2
Systematic ID
SPAC4G8.07c
Product
tRNA (m5U54) methyltransferase Trm2
Organism
Schizosaccharomyces pombe (fission yeast)
UniProt ID
Q09833
ORFeome ID
27/27E04
Characterisation status
biological role inferred
Feature type
mRNA gene
Genomic location
chromosome I: 774000..775887 reverse strand

Annotation

GO biological process

GO:0030488 - tRNA methylation

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GO cellular component

GO:0005739 - mitochondrion

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GO:0005634 - nucleus

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GO molecular function

GO:0030697 - tRNA (uracil(54)-C5)-methyltransferase activity, S-adenosyl methionine-dependent

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Qualitative gene expression

PomGeneEx:0000019 - protein level decreased

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PomGeneEx:0000012 - RNA level decreased

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Quantitative gene expression

PBO:0006310 - protein level

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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:0000245 - loss of viability in stationary phase

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Genotypes:

FYPO:0007035 - normal growth on 5-fluorouracil

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Genotypes:

FYPO:0009031 - resistance to bleomycin

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Genotypes:

FYPO:0001583 - resistance to lithium

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Genotypes:

FYPO:0000725 - resistance to methyl methanesulfonate

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Genotypes:

FYPO:0001501 - sensitive to brefeldin A

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Genotypes:

FYPO:0007931 - sensitive to egtazic acid

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Genotypes:

FYPO:0000785 - sensitive to formamide

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

Warnings

PBO:0000070 - gene structure updated

Protein features

IDNameInterPro nameDB name
PF01938TRAMTRAM_domPfam
PF05958tRNA_U5-meth_trU5_MeTrfase_famPfam
cd02440AdoMet_MTasesCDD
PS01230TRMA_1MeTrfase_TrmA_ASPROSITE patterns
PS01231TRMA_2MeTrfase_TrmA_CSPROSITE patterns
PS50926TRAMTRAM_domPROSITE profiles
PS51622SAM_MT_RNA_M5U_2tRNA_(uracil-5-)_MeTrfasePROSITE profiles
PS51687SAM_MT_RNA_M5UU5_MeTrfase_famPROSITE profiles
G3DSA:2.40.50.140:FF:000201CATH-FunFam
G3DSA:3.40.50.150:FF:000174CATH-FunFam
G3DSA:2.40.50.140NA-bd_OB-foldCATH-Gene3D
G3DSA:3.40.50.150SAM-dependent_MTases_sfCATH-Gene3D
SSF50249NA-bd_OB-foldSUPERFAMILY
SSF53335SAM-dependent_MTases_sfSUPERFAMILY
PTHR11061U5_MeTrfase_famPANTHER
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Polardisorder_predictionMobiDB-Polar
mobidb-lite-Positive-Polyelectrolytedisorder_predictionMobiDB-Positive-Polyelectrolyte

Orthologs

References / Literature

PMID:34250083 - Barcode sequencing and a high-throughput assay for chronological lifespan uncover ageing-associated genes in fission yeast.
Romila CA et al. Microb Cell 2021 Jul 05;8(7):146-160
PMID:24223771 - New insights into the RNA-based mechanism of action of the anticancer drug 5'-fluorouracil in eukaryotic cells.
Mojardín L et al. PLoS One 2013;8(11):e78172
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
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: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:28974540 - The fission yeast nucleoporin Alm1 is required for proteasomal degradation of kinetochore components.
Salas-Pino S et al. J Cell Biol 2017 Nov 06;216(11):3591-3608
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:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.
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: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: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:37787768 - Broad functional profiling of fission yeast proteins using phenomics and machine learning.
Rodríguez-López M et al. Elife 2023 Oct 03;12
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