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Aliases for LCMT1 Gene

Aliases for LCMT1 Gene

  • Leucine Carboxyl Methyltransferase 1 2 3 5
  • [Phosphatase 2A Protein]-Leucine-Carboxy Methyltransferase 1 3 4
  • [Phosphatase 2A Protein]-Leucine-Carboxy Methyltransferase 2 3
  • Protein Phosphatase Methyltransferase 1 2 3
  • Protein-Leucine O-Methyltransferase 3 4
  • LCMT 3 4
  • EC 4
  • CGI-68 3
  • PPMT1 3

External Ids for LCMT1 Gene

Previous GeneCards Identifiers for LCMT1 Gene

  • GC16P025222
  • GC16P025050
  • GC16P025089
  • GC16P025030
  • GC16P025123
  • GC16P023216
  • GC16P025226
  • GC16P025412

Summaries for LCMT1 Gene

Entrez Gene Summary for LCMT1 Gene

  • LCMT1 catalyzes the methylation of the carboxyl group of the C-terminal leucine residue (leu309) of the catalytic subunit of protein phosphatase-2A (PPP2CA; MIM 176915) (De Baere et al., 1999 [PubMed 10600115]).[supplied by OMIM, Mar 2008]

GeneCards Summary for LCMT1 Gene

LCMT1 (Leucine Carboxyl Methyltransferase 1) is a Protein Coding gene. GO annotations related to this gene include methyltransferase activity and S-adenosylmethionine-dependent methyltransferase activity. An important paralog of this gene is LCMT2.

UniProtKB/Swiss-Prot for LCMT1 Gene

  • Methylates the carboxyl group of the C-terminal leucine residue of protein phosphatase 2A catalytic subunits to form alpha-leucine ester residues.

Gene Wiki entry for LCMT1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LCMT1 Gene

Genomics for LCMT1 Gene

Regulatory Elements for LCMT1 Gene

Enhancers for LCMT1 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around LCMT1 on UCSC Golden Path with GeneCards custom track

Promoters for LCMT1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around LCMT1 on UCSC Golden Path with GeneCards custom track

Genomic Location for LCMT1 Gene

25,111,726 bp from pter
25,178,231 bp from pter
66,506 bases
Plus strand

Genomic View for LCMT1 Gene

Genes around LCMT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LCMT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LCMT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LCMT1 Gene

Proteins for LCMT1 Gene

  • Protein details for LCMT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Leucine carboxyl methyltransferase 1
    Protein Accession:
    Secondary Accessions:
    • A6NL89
    • A8K770
    • Q53FC5
    • Q96CI5
    • Q9H6I9
    • Q9NTG4
    • Q9Y378

    Protein attributes for LCMT1 Gene

    334 amino acids
    Molecular mass:
    38379 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for LCMT1 Gene

    Alternative splice isoforms for LCMT1 Gene


neXtProt entry for LCMT1 Gene

Proteomics data for LCMT1 Gene at MOPED

Post-translational modifications for LCMT1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for LCMT1 Gene

Domains & Families for LCMT1 Gene

Gene Families for LCMT1 Gene

Protein Domains for LCMT1 Gene

Suggested Antigen Peptide Sequences for LCMT1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the methyltransferase superfamily. LCMT family.
  • Belongs to the methyltransferase superfamily. LCMT family.
genes like me logo Genes that share domains with LCMT1: view

Function for LCMT1 Gene

Molecular function for LCMT1 Gene

UniProtKB/Swiss-Prot BiophysicochemicalProperties:
Kinetic parameters: KM=0.1 uM for PP2AD {ECO:0000269 PubMed:10600115}; KM=1.3 uM for AdoMet {ECO:0000269 PubMed:10600115};
UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + [phosphatase 2A protein]-leucine = S-adenosyl-L-homocysteine + [phosphatase 2A protein]-leucine methyl ester.
UniProtKB/Swiss-Prot Function:
Methylates the carboxyl group of the C-terminal leucine residue of protein phosphatase 2A catalytic subunits to form alpha-leucine ester residues.

Enzyme Numbers (IUBMB) for LCMT1 Gene

Gene Ontology (GO) - Molecular Function for LCMT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16189514
GO:0008168 methyltransferase activity IEA --
genes like me logo Genes that share ontologies with LCMT1: view
genes like me logo Genes that share phenotypes with LCMT1: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LCMT1

No data available for Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LCMT1 Gene

Localization for LCMT1 Gene

Subcellular locations from

Jensen Localization Image for LCMT1 Gene COMPARTMENTS Subcellular localization image for LCMT1 gene
Compartment Confidence
cytosol 5
nucleus 3
cytoskeleton 1
endoplasmic reticulum 1
extracellular 1
peroxisome 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for LCMT1 Gene

Pathways & Interactions for LCMT1 Gene

SuperPathways for LCMT1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LCMT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006481 C-terminal protein methylation IDA 10600115
GO:0031333 negative regulation of protein complex assembly IMP 17724024
GO:0032259 methylation IEA --
genes like me logo Genes that share ontologies with LCMT1: view

No data available for Pathways by source and SIGNOR curated interactions for LCMT1 Gene

Drugs & Compounds for LCMT1 Gene

(3) Drugs for LCMT1 Gene - From: DrugBank and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
L-Leucine Approved Nutra Target 0
S-Adenosylmethionine Approved Nutra 0
s-adenosylhomocysteine Experimental Pharma 0
genes like me logo Genes that share compounds with LCMT1: view

Transcripts for LCMT1 Gene

Unigene Clusters for LCMT1 Gene

Leucine carboxyl methyltransferase 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for LCMT1 Gene

No ASD Table

Relevant External Links for LCMT1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for LCMT1 Gene

mRNA expression in normal human tissues for LCMT1 Gene

Protein differential expression in normal tissues from HIPED for LCMT1 Gene

This gene is overexpressed in Testis (9.8), Skin (6.4), and Peripheral blood mononuclear cells (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for LCMT1 Gene

SOURCE GeneReport for Unigene cluster for LCMT1 Gene Hs.337730

genes like me logo Genes that share expression patterns with LCMT1: view

Protein tissue co-expression partners for LCMT1 Gene

- Elite partner

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for LCMT1 Gene

Orthologs for LCMT1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for LCMT1 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia LCMT1 35
  • 86.45 (n)
  • 87.35 (a)
LCMT1 36
  • 87 (a)
(Canis familiaris)
Mammalia LCMT1 35
  • 88.53 (n)
  • 91.64 (a)
LCMT1 36
  • 88 (a)
(Mus musculus)
Mammalia Lcmt1 35
  • 86.24 (n)
  • 90.16 (a)
Lcmt1 16
Lcmt1 36
  • 88 (a)
(Pan troglodytes)
Mammalia LCMT1 35
  • 99.9 (n)
  • 100 (a)
LCMT1 36
  • 100 (a)
(Rattus norvegicus)
Mammalia Lcmt1 35
  • 85.61 (n)
  • 89.84 (a)
(Monodelphis domestica)
Mammalia LCMT1 36
  • 78 (a)
(Ornithorhynchus anatinus)
Mammalia LCMT1 36
  • 80 (a)
(Gallus gallus)
Aves LCMT1 35
  • 74.39 (n)
  • 74.6 (a)
LCMT1 36
  • 73 (a)
(Anolis carolinensis)
Reptilia LCMT1 36
  • 63 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia lcmt1 35
  • 69.63 (n)
  • 71.43 (a)
Str.5797 35
(Danio rerio)
Actinopterygii Dr.1860 35
lcmt1 35
  • 66.24 (n)
  • 65.4 (a)
lcmt1 36
  • 64 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008768 35
  • 54.1 (n)
  • 48.82 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG3793 35
  • 54.1 (n)
  • 50.51 (a)
CG3793 36
  • 43 (a)
(Caenorhabditis elegans)
Secernentea CELE_B0285.4 35
  • 45.78 (n)
  • 41 (a)
B0285.4 36
  • 36 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PPM2 36
  • 11 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G02100 35
  • 48.29 (n)
  • 37.67 (a)
(Oryza sativa)
Liliopsida Os06g0140100 35
  • 48.79 (n)
  • 36.42 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8848 36
  • 49 (a)
Species with no ortholog for LCMT1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • fission yeast (Schizosaccharomyces pombe)
  • 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 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)

Evolution for LCMT1 Gene

Gene Tree for LCMT1 (if available)
Gene Tree for LCMT1 (if available)

Paralogs for LCMT1 Gene

Paralogs for LCMT1 Gene Pseudogenes for LCMT1 Gene

genes like me logo Genes that share paralogs with LCMT1: view

Variants for LCMT1 Gene

Sequence variations from dbSNP and Humsavar for LCMT1 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs8062337 -- 25,116,120(+) gagct(A/G)tgggg intron-variant
rs169373 -- 25,171,445(+) AAAAA(A/C)CCCAA intron-variant
rs182171 -- 25,169,621(-) ttcac(A/G)tgtgt intron-variant
rs202853 -- 25,171,080(+) AAAAT(A/G)CAAAA intron-variant
rs9630611 -- 25,170,711(+) CATTT(C/T)AGAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LCMT1 Gene

Variant ID Type Subtype PubMed ID
dgv840e1 CNV Complex 17122850
esv3441 CNV Deletion 18987735
esv2714121 CNV Deletion 23290073
esv2660591 CNV Deletion 23128226
dgv41e19 CNV Loss 19470904
essv10614 CNV CNV 17122850
esv34994 CNV Gain 17911159
essv10712 CNV CNV 17122850

Variation tolerance for LCMT1 Gene

Residual Variation Intolerance Score: 29.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.71; 15.13% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for LCMT1 Gene

Disorders for LCMT1 Gene

Relevant External Links for LCMT1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for LCMT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LCMT1 Gene

Publications for LCMT1 Gene

  1. Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics. (PMID: 10810093) Lai C.-H. … Lin W.-C. (Genome Res. 2000) 2 3 4 67
  2. A LCMT1-PME-1 methylation equilibrium controls mitotic spindle size. (PMID: 25839665) Xia X. … Torres J.Z. (Cell Cycle 2015) 3
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  4. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  5. The biogenesis of active protein phosphatase 2A holoenzymes: a tightly regulated process creating phosphatase specificity. (PMID: 22443683) Sents W. … Janssens V. (FEBS J. 2013) 3

Products for LCMT1 Gene

Sources for LCMT1 Gene