Atlas of Genetics and Cytogenetics in Oncology and Haematology

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LCMT1 (leucine carboxyl methyltransferase 1)

Identity

Alias_symbol (synonym)CGI-68
PPMT1
Other aliasLCMT
HGNC (Hugo) LCMT1
LocusID (NCBI) 51451
Atlas_Id 54420
Location 16p12.1  [Link to chromosome band 16p12]
Location_base_pair Starts at 25111726 and ends at 25178230 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
POM121L4P (22q11.21) / LCMT1 (16p12.1)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 2 ]
  Lung: Translocations in Squamous Cell Carcinoma
t(16;22)(p12;q11) POM121L4P/LCMT1

External links

Nomenclature
HGNC (Hugo)LCMT1   17557
Cards
Entrez_Gene (NCBI)LCMT1  51451  leucine carboxyl methyltransferase 1
AliasesCGI-68; LCMT; PPMT1
GeneCards (Weizmann)LCMT1
Ensembl hg19 (Hinxton)ENSG00000205629 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000205629 [Gene_View]  ENSG00000205629 [Sequence]  chr16:25111726-25178230 [Contig_View]  LCMT1 [Vega]
ICGC DataPortalENSG00000205629
TCGA cBioPortalLCMT1
AceView (NCBI)LCMT1
Genatlas (Paris)LCMT1
WikiGenes51451
SOURCE (Princeton)LCMT1
Genetics Home Reference (NIH)LCMT1
Genomic and cartography
GoldenPath hg38 (UCSC)LCMT1  -     chr16:25111726-25178230 +  16p12.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LCMT1  -     16p12.1   [Description]    (hg19-Feb_2009)
EnsemblLCMT1 - 16p12.1 [CytoView hg19]  LCMT1 - 16p12.1 [CytoView hg38]
Mapping of homologs : NCBILCMT1 [Mapview hg19]  LCMT1 [Mapview hg38]
OMIM610286   
Gene and transcription
Genbank (Entrez)AF037601 AF151826 AK025884 AK223364 AK225271
RefSeq transcript (Entrez)NM_001032391 NM_016309
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LCMT1
Cluster EST : UnigeneHs.337730 [ NCBI ]
CGAP (NCI)Hs.337730
Alternative Splicing GalleryENSG00000205629
Gene ExpressionLCMT1 [ NCBI-GEO ]   LCMT1 [ EBI - ARRAY_EXPRESS ]   LCMT1 [ SEEK ]   LCMT1 [ MEM ]
Gene Expression Viewer (FireBrowse)LCMT1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51451
GTEX Portal (Tissue expression)LCMT1
Human Protein AtlasENSG00000205629-LCMT1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UIC8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UIC8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UIC8
Splice isoforms : SwissVarQ9UIC8
Catalytic activity : Enzyme2.1.1.233 [ Enzyme-Expasy ]   2.1.1.2332.1.1.233 [ IntEnz-EBI ]   2.1.1.233 [ BRENDA ]   2.1.1.233 [ KEGG ]   
PhosPhoSitePlusQ9UIC8
Domains : Interpro (EBI)Leu_CO_MeTrfase_LCMT1    Ppm1/Ppm2/Tcmp    SAM-dependent_MTases   
Domain families : Pfam (Sanger)LCM (PF04072)   
Domain families : Pfam (NCBI)pfam04072   
Conserved Domain (NCBI)LCMT1
DMDM Disease mutations51451
Blocks (Seattle)LCMT1
PDB (SRS)3IEI    3O7W    3P71   
PDB (PDBSum)3IEI    3O7W    3P71   
PDB (IMB)3IEI    3O7W    3P71   
PDB (RSDB)3IEI    3O7W    3P71   
Structural Biology KnowledgeBase3IEI    3O7W    3P71   
SCOP (Structural Classification of Proteins)3IEI    3O7W    3P71   
CATH (Classification of proteins structures)3IEI    3O7W    3P71   
SuperfamilyQ9UIC8
Human Protein Atlas [tissue]ENSG00000205629-LCMT1 [tissue]
Peptide AtlasQ9UIC8
HPRD17266
IPIIPI00414463   IPI00651717   IPI00296370   
Protein Interaction databases
DIP (DOE-UCLA)Q9UIC8
IntAct (EBI)Q9UIC8
FunCoupENSG00000205629
BioGRIDLCMT1
STRING (EMBL)LCMT1
ZODIACLCMT1
Ontologies - Pathways
QuickGOQ9UIC8
Ontology : AmiGOG2/M transition of mitotic cell cycle  protein C-terminal carboxyl O-methyltransferase activity  protein binding  nucleoplasm  cytosol  cellular protein modification process  protein methylation  C-terminal protein methylation  S-adenosylmethionine-dependent methyltransferase activity  regulation of glucose metabolic process  protein C-terminal leucine carboxyl O-methyltransferase activity  protein C-terminal leucine carboxyl O-methyltransferase activity  negative regulation of protein complex assembly  regulation of apoptotic process  regulation of mitotic cell cycle spindle assembly checkpoint  
Ontology : EGO-EBIG2/M transition of mitotic cell cycle  protein C-terminal carboxyl O-methyltransferase activity  protein binding  nucleoplasm  cytosol  cellular protein modification process  protein methylation  C-terminal protein methylation  S-adenosylmethionine-dependent methyltransferase activity  regulation of glucose metabolic process  protein C-terminal leucine carboxyl O-methyltransferase activity  protein C-terminal leucine carboxyl O-methyltransferase activity  negative regulation of protein complex assembly  regulation of apoptotic process  regulation of mitotic cell cycle spindle assembly checkpoint  
Pathways : KEGGTryptophan metabolism    Tyrosine metabolism    Androgen and estrogen metabolism    Selenoamino acid metabolism    Aminophosphonate metabolism    Nitrobenzene degradation    Histidine metabolism   
NDEx NetworkLCMT1
Atlas of Cancer Signalling NetworkLCMT1
Wikipedia pathwaysLCMT1
Orthology - Evolution
OrthoDB51451
GeneTree (enSembl)ENSG00000205629
Phylogenetic Trees/Animal Genes : TreeFamLCMT1
HOVERGENQ9UIC8
HOGENOMQ9UIC8
Homologs : HomoloGeneLCMT1
Homology/Alignments : Family Browser (UCSC)LCMT1
Gene fusions - Rearrangements
Fusion : MitelmanPOM121L4P/LCMT1 [22q11.21/16p12.1]  [t(16;22)(p12;q11)]  
Fusion : QuiverLCMT1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLCMT1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LCMT1
dbVarLCMT1
ClinVarLCMT1
1000_GenomesLCMT1 
Exome Variant ServerLCMT1
ExAC (Exome Aggregation Consortium)ENSG00000205629
GNOMAD BrowserENSG00000205629
Genetic variants : HAPMAP51451
Genomic Variants (DGV)LCMT1 [DGVbeta]
DECIPHERLCMT1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLCMT1 
Mutations
ICGC Data PortalLCMT1 
TCGA Data PortalLCMT1 
Broad Tumor PortalLCMT1
OASIS PortalLCMT1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLCMT1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLCMT1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch LCMT1
DgiDB (Drug Gene Interaction Database)LCMT1
DoCM (Curated mutations)LCMT1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LCMT1 (select a term)
intoGenLCMT1
Cancer3DLCMT1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610286   
Orphanet
DisGeNETLCMT1
MedgenLCMT1
Genetic Testing Registry LCMT1
NextProtQ9UIC8 [Medical]
TSGene51451
GENETestsLCMT1
Target ValidationLCMT1
Huge Navigator LCMT1 [HugePedia]
snp3D : Map Gene to Disease51451
BioCentury BCIQLCMT1
ClinGenLCMT1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51451
Chemical/Pharm GKB GenePA134928443
Clinical trialLCMT1
Miscellaneous
canSAR (ICR)LCMT1 (select the gene name)
Probes
Litterature
PubMed20 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLCMT1
EVEXLCMT1
GoPubMedLCMT1
iHOPLCMT1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Jun 22 16:32:53 CEST 2018
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