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Aliases for TRDMT1 Gene

Aliases for TRDMT1 Gene

  • TRNA Aspartic Acid Methyltransferase 1 2 3 5
  • DNA (Cytosine-5)-Methyltransferase-Like Protein 2 3 4
  • DNA MTase Homolog HsaIIP 3 4
  • PUMET 3 4
  • DNMT2 3 4
  • TRNA (Cytosine(38)-C(5))-Methyltransferase 2
  • DNA (Cytosine-5-)-Methyltransferase 2 2
  • TRNA (Cytosine-5-)-Methyltransferase 3
  • DNA Methyltransferase Homolog HsaIIP 4
  • DNA Cytosine-5 Methyltransferase 2 3
  • DNA Methyltransferase-2 3
  • EC 2.1.1.204 4
  • EC 2.1.1.29 63
  • M.HsaIIP 4
  • EC 2.1.1 63
  • MHSAIIP 3
  • DMNT2 3
  • RNMT1 3

External Ids for TRDMT1 Gene

Previous HGNC Symbols for TRDMT1 Gene

  • DNMT2

Previous GeneCards Identifiers for TRDMT1 Gene

  • GC10M017225

Summaries for TRDMT1 Gene

Entrez Gene Summary for TRDMT1 Gene

  • This gene encodes a protein responsible for the methylation of aspartic acid transfer RNA, specifically at the cytosine-38 residue in the anticodon loop. This enzyme also possesses residual DNA-(cytosine-C5) methyltransferase activity. While similar in sequence and structure to DNA cytosine methyltransferases, this gene is distinct and highly conserved in its function among taxa. [provided by RefSeq, Jun 2010]

GeneCards Summary for TRDMT1 Gene

TRDMT1 (TRNA Aspartic Acid Methyltransferase 1) is a Protein Coding gene. Among its related pathways are Gene Expression and tRNA processing. GO annotations related to this gene include RNA binding and DNA (cytosine-5-)-methyltransferase activity.

UniProtKB/Swiss-Prot for TRDMT1 Gene

  • Specifically methylates cytosine 38 in the anticodon loop of tRNA(Asp).

Tocris Summary for TRDMT1 Gene

  • Protein arginine methyltransferases are enyzmes that catalyze the transfer of methyl groups from S-adenosylmethionine (SAM) to the arginine residues on histones and other proteins. The dysregulation of this methylation is critical in the development of certain cancers.

Gene Wiki entry for TRDMT1 Gene

No data available for PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRDMT1 Gene

Genomics for TRDMT1 Gene

Regulatory Elements for TRDMT1 Gene

Promoters for TRDMT1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TRDMT1 on UCSC Golden Path with GeneCards custom track

Genomic Location for TRDMT1 Gene

Chromosome:
10
Start:
17,137,802 bp from pter
End:
17,202,071 bp from pter
Size:
64,270 bases
Orientation:
Minus strand

Genomic View for TRDMT1 Gene

Genes around TRDMT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRDMT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRDMT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRDMT1 Gene

Proteins for TRDMT1 Gene

  • Protein details for TRDMT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O14717-TRDMT_HUMAN
    Recommended name:
    tRNA (cytosine(38)-C(5))-methyltransferase
    Protein Accession:
    O14717
    Secondary Accessions:
    • B0YJ02
    • B0YJ03
    • B0YJ07
    • B0YJ08
    • O43669
    • Q86WW6

    Protein attributes for TRDMT1 Gene

    Size:
    391 amino acids
    Molecular mass:
    44597 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for TRDMT1 Gene

    Alternative splice isoforms for TRDMT1 Gene

neXtProt entry for TRDMT1 Gene

Proteomics data for TRDMT1 Gene at MOPED

Selected DME Specific Peptides for TRDMT1 Gene

Post-translational modifications for TRDMT1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

Domains & Families for TRDMT1 Gene

Protein Domains for TRDMT1 Gene

Graphical View of Domain Structure for InterPro Entry

O14717

UniProtKB/Swiss-Prot:

TRDMT_HUMAN :
  • Contains 1 SAM-dependent MTase C5-type domain.
  • Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.
Domain:
  • Contains 1 SAM-dependent MTase C5-type domain.
Family:
  • Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.
genes like me logo Genes that share domains with TRDMT1: view

No data available for Gene Families for TRDMT1 Gene

Function for TRDMT1 Gene

Molecular function for TRDMT1 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + cytosine(38) in tRNA = S-adenosyl-L-homocysteine + 5-methylcytosine(38) in tRNA.
UniProtKB/Swiss-Prot Function:
Specifically methylates cytosine 38 in the anticodon loop of tRNA(Asp).

Enzyme Numbers (IUBMB) for TRDMT1 Gene

Gene Ontology (GO) - Molecular Function for TRDMT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0008175 tRNA methyltransferase activity IDA 16424344
genes like me logo Genes that share ontologies with TRDMT1: view
genes like me logo Genes that share phenotypes with TRDMT1: view

Animal Models for TRDMT1 Gene

MGI Knock Outs for TRDMT1:

Animal Model Products

CRISPR Products

miRNA for TRDMT1 Gene

miRNA Products

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRDMT1 Gene

Localization for TRDMT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRDMT1 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TRDMT1 Gene COMPARTMENTS Subcellular localization image for TRDMT1 gene
Compartment Confidence
nucleus 5
cytoskeleton 3
cytosol 2
chloroplast 1

Gene Ontology (GO) - Cellular Components for TRDMT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA 16424344
genes like me logo Genes that share ontologies with TRDMT1: view

Pathways & Interactions for TRDMT1 Gene

genes like me logo Genes that share pathways with TRDMT1: view

Pathways by source for TRDMT1 Gene

Gene Ontology (GO) - Biological Process for TRDMT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030488 tRNA methylation IDA 16424344
GO:0032259 methylation IEA --
GO:0090116 C-5 methylation of cytosine TAS 9425235
genes like me logo Genes that share ontologies with TRDMT1: view

No data available for SIGNOR curated interactions for TRDMT1 Gene

Drugs & Compounds for TRDMT1 Gene

(5) Drugs for TRDMT1 Gene - From: DrugBank, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Pentamidine Approved Pharma Target, other 39
S-Adenosylmethionine Approved Nutra 0
Glycerol Experimental Pharma Target 191
s-adenosylhomocysteine Experimental Pharma Target 0

(7) Additional Compounds for TRDMT1 Gene - From: Tocris, Novoseek, and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
5-methylcytosine
  • 4-Amino-5-methyl-2-(1H)-Pyrimidinone
  • 4-Amino-5-methyl-2-pyrimidinol
  • 5-Methyl-Cytosine
  • 5-Methylcytosine
  • 5-Methylcytosine>96
554-01-8
C 21
1229236-78-5
Furamidine dihydrochloride
55368-40-6
SGC 707
TC-E 5003
17328-16-4

(5) Tocris Compounds for TRDMT1 Gene

Compound Action Cas Number
C 21 Selective PRMT1 inhibitor 1229236-78-5
Furamidine dihydrochloride Selective PRMT1 inhibitor 55368-40-6
SGC 707 Potent and selective allosteric inhibitor of PRMT3
TC-E 5003 Selective PRMT1 inhibitor 17328-16-4
UNC 2327 Allosteric inhibitor of PRMT3 1426152-53-5
genes like me logo Genes that share compounds with TRDMT1: view

Transcripts for TRDMT1 Gene

Unigene Clusters for TRDMT1 Gene

TRNA aspartic acid methyltransferase 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TRDMT1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b
SP1: - -
SP2: - - -
SP3:
SP4:

Relevant External Links for TRDMT1 Gene

GeneLoc Exon Structure for
TRDMT1
ECgene alternative splicing isoforms for
TRDMT1

Expression for TRDMT1 Gene

mRNA expression in normal human tissues for TRDMT1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TRDMT1 Gene

This gene is overexpressed in Saliva (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for TRDMT1 Gene



SOURCE GeneReport for Unigene cluster for TRDMT1 Gene Hs.351665

mRNA Expression by UniProt/SwissProt for TRDMT1 Gene

O14717-TRDMT_HUMAN
Tissue specificity: Ubiquitous. Higher expression in testis, ovary and thymus and at much lower levels in spleen, prostate, colon, small intestine, and peripheral blood leukocytes.
genes like me logo Genes that share expression patterns with TRDMT1: view

Protein tissue co-expression partners for TRDMT1 Gene

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for TRDMT1 Gene

Orthologs for TRDMT1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TRDMT1 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia TRDMT1 35
  • 89.12 (n)
  • 86.12 (a)
TRDMT1 36
  • 86 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRDMT1 35
  • 90.03 (n)
  • 86.96 (a)
TRDMT1 36
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Trdmt1 35
  • 83.25 (n)
  • 81.54 (a)
Trdmt1 16
Trdmt1 36
  • 76 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia TRDMT1 35
  • 99.49 (n)
  • 99.74 (a)
TRDMT1 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Trdmt1 35
  • 80.77 (n)
  • 81.28 (a)
oppossum
(Monodelphis domestica)
Mammalia TRDMT1 36
  • 76 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRDMT1 36
  • 53 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRDMT1 35
  • 72.92 (n)
  • 68.91 (a)
TRDMT1 36
  • 67 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TRDMT1 36
  • 62 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia trdmt1 35
  • 66.32 (n)
  • 64.58 (a)
African clawed frog
(Xenopus laevis)
Amphibia MGC53207 35
zebrafish
(Danio rerio)
Actinopterygii trdmt1 35
  • 61.74 (n)
  • 64.11 (a)
trdmt1 36
  • 61 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012836 35
  • 51.14 (n)
  • 46.59 (a)
fruit fly
(Drosophila melanogaster)
Insecta Mt2 35
  • 50.2 (n)
  • 44.82 (a)
Mt2 36
  • 38 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons DNMT2 35
  • 48.65 (n)
  • 40.95 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes pmt1 35
  • 52.1 (n)
  • 44.65 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 45 (a)
OneToOne
Species with no ortholog for TRDMT1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TRDMT1 Gene

ENSEMBL:
Gene Tree for TRDMT1 (if available)
TreeFam:
Gene Tree for TRDMT1 (if available)

Paralogs for TRDMT1 Gene

(2) SIMAP similar genes for TRDMT1 Gene using alignment to 6 proteins:

genes like me logo Genes that share paralogs with TRDMT1: view

No data available for Paralogs for TRDMT1 Gene

Variants for TRDMT1 Gene

Sequence variations from dbSNP and Humsavar for TRDMT1 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type
rs11254413 - 17,162,188(+) AATAT(A/G)TAAGA intron-variant, reference, missense
rs725355 -- 17,160,866(+) TAATA(C/T)TGAAT intron-variant
rs725356 -- 17,161,107(+) ACAGG(A/G)ATTCT intron-variant
rs1132158 -- 17,160,326(-) CAAGA(A/G)TTTCT reference, synonymous-codon
rs1885394 -- 17,201,481(-) GACGC(A/T)AGGGG intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for TRDMT1 Gene

Variant ID Type Subtype PubMed ID
nsv894908 CNV Gain 21882294
nsv831801 CNV Gain 17160897
esv2733606 CNV Deletion 23290073
nsv508571 CNV Loss 20534489

Variation tolerance for TRDMT1 Gene

Residual Variation Intolerance Score: 60.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.25; 40.49% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRDMT1 Gene

HapMap Linkage Disequilibrium report
TRDMT1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRDMT1 Gene

Disorders for TRDMT1 Gene

Relevant External Links for TRDMT1

Genetic Association Database (GAD)
TRDMT1
Human Genome Epidemiology (HuGE) Navigator
TRDMT1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRDMT1

No disorders were found for TRDMT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRDMT1 Gene

Publications for TRDMT1 Gene

  1. A candidate mammalian DNA methyltransferase related to pmt1p of fission yeast. (PMID: 9425235) Yoder J.A. … Bestor T.H. (Hum. Mol. Genet. 1998) 2 3 4 23 67
  2. Methylation of tRNAAsp by the DNA methyltransferase homolog Dnmt2. (PMID: 16424344) Goll M.G. … Bestor T.H. (Science 2006) 2 3 23
  3. A systematic search for DNA methyltransferase polymorphisms reveals a rare DNMT3L variant associated with subtelomeric hypomethylation. (PMID: 19246518) El-Maarri O. … ChAcdin F. (Hum. Mol. Genet. 2009) 3 23
  4. Human DNMT2 methylates tRNA(Asp) molecules using a DNA methyltransferase-like catalytic mechanism. (PMID: 18567810) Jurkowski T.P. … Jeltsch A. (RNA 2008) 3 23
  5. Pentamidine binds to tRNA through non-specific hydrophobic interactions and inhibits aminoacylation and translation. (PMID: 18263620) Sun T. … Zhang Y. (Nucleic Acids Res. 2008) 25 26

Products for TRDMT1 Gene

Sources for TRDMT1 Gene

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