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Aliases for LIME1 Gene

Aliases for LIME1 Gene

  • Lck Interacting Transmembrane Adaptor 1 2 3
  • LIME 3 4 6
  • Lck-Interacting Membrane Protein 3 4
  • Lck-Interacting Molecule 3 4
  • Lck-Interacting Transmembrane Adapter 1 3
  • DJ583P15.4 3

External Ids for LIME1 Gene

Previous GeneCards Identifiers for LIME1 Gene

  • GC20P061839
  • GC20P062366
  • GC20P059100

Summaries for LIME1 Gene

Entrez Gene Summary for LIME1 Gene

  • This gene encodes a transmembrane adaptor protein that links the T and B-cell receptor stimulation to downstream signaling pathways via its association with the Src family kinases Lck and Lyn, respectively. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Mar 2015]

GeneCards Summary for LIME1 Gene

LIME1 (Lck Interacting Transmembrane Adaptor 1) is a Protein Coding gene. Among its related pathways are B Cell Receptor Signaling Pathway (WikiPathways). GO annotations related to this gene include protein kinase binding. An important paralog of this gene is ENSG00000273047.

UniProtKB/Swiss-Prot for LIME1 Gene

  • Involved in BCR (B-cell antigen receptor)-mediated signaling in B-cells and TCR (T-cell antigen receptor)-mediated T-cell signaling in T-cells. In absence of TCR signaling, may be involved in CD4-mediated inhibition of T-cell activation. Couples activation of these receptors and their associated kinases with distal intracellular events such as calcium mobilization or MAPK activation through the recruitment of PLCG2, GRB2, GRAP2, and other signaling molecules.

Gene Wiki entry for LIME1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LIME1 Gene

Genomics for LIME1 Gene

Regulatory Elements for LIME1 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for LIME1 Gene

Start:
63,736,283 bp from pter
End:
63,739,107 bp from pter
Size:
2,825 bases
Orientation:
Plus strand

Genomic View for LIME1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for LIME1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LIME1 Gene

Proteins for LIME1 Gene

  • Protein details for LIME1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H400-LIME1_HUMAN
    Recommended name:
    Lck-interacting transmembrane adapter 1
    Protein Accession:
    Q9H400
    Secondary Accessions:
    • E1P5K5
    • E1P5K6
    • Q5JWJ2
    • Q6XYB3
    • Q9NX69

    Protein attributes for LIME1 Gene

    Size:
    295 amino acids
    Molecular mass:
    31288 Da
    Quaternary structure:
    • When phosphorylated in response to BCR activation, interacts with LYN, PIK3R1, PLCG2, and GRB2 (By similarity). When phosphorylated in response to TCR stimulation and/or CD4 co-stimulation, interacts with LCK, CSK, FYN, PTPN11/SHP2, GRB2, PIK3R1 and GRAP2.

    Alternative splice isoforms for LIME1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LIME1 Gene

Proteomics data for LIME1 Gene at MOPED

Post-translational modifications for LIME1 Gene

  • Palmitoylation of Cys-28 and Cys-31 is required for raft targeting.
  • Phosphorylated on tyrosines upon TCR activation and/or CD4 coreceptor stimulation, or upon BCR stimulation; which leads to the recruitment of SH2-containing proteins.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for LIME1 Gene

Domains for LIME1 Gene

Protein Domains for LIME1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LIME1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LIME1: view

No data available for Gene Families and UniProtKB/Swiss-Prot for LIME1 Gene

Function for LIME1 Gene

Molecular function for LIME1 Gene

UniProtKB/Swiss-Prot Function: Involved in BCR (B-cell antigen receptor)-mediated signaling in B-cells and TCR (T-cell antigen receptor)-mediated T-cell signaling in T-cells. In absence of TCR signaling, may be involved in CD4-mediated inhibition of T-cell activation. Couples activation of these receptors and their associated kinases with distal intracellular events such as calcium mobilization or MAPK activation through the recruitment of PLCG2, GRB2, GRAP2, and other signaling molecules.

Phenotypes for LIME1 Gene

genes like me logo Genes that share phenotypes with LIME1: view

Animal Models for LIME1 Gene

MGI Knock Outs for LIME1:

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for LIME1

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , miRNA , Transcription Factor Targeting and HOMER Transcription for LIME1 Gene

Localization for LIME1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LIME1 Gene

Cell membrane; Single-pass type III membrane protein. Note=Present in lipid rafts. Recruited to the immunological synapse upon conjugation of T-cell with antigen-presenting cell.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LIME1 Gene COMPARTMENTS Subcellular localization image for LIME1 gene
Compartment Confidence
plasma membrane 5

Gene Ontology (GO) - Cellular Components for LIME1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IDA 22664934
GO:0005886 plasma membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LIME1: view

Pathways for LIME1 Gene

genes like me logo Genes that share pathways with LIME1: view

Pathways by source for LIME1 Gene

1 BioSystems pathway for LIME1 Gene

Gene Ontology (GO) - Biological Process for LIME1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0050852 T cell receptor signaling pathway IEA --
GO:0050853 B cell receptor signaling pathway IEA --
genes like me logo Genes that share ontologies with LIME1: view

Compounds for LIME1 Gene

(1) HMDB Compounds for LIME1 Gene

Compound Synonyms Cas Number PubMed IDs
Calcium
  • Ca
7440-70-2
genes like me logo Genes that share compounds with LIME1: view

Transcripts for LIME1 Gene

Unigene Clusters for LIME1 Gene

Lck interacting transmembrane adaptor 1:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for LIME1

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LIME1 Gene

No ASD Table

Relevant External Links for LIME1 Gene

GeneLoc Exon Structure for
LIME1
ECgene alternative splicing isoforms for
LIME1

Expression for LIME1 Gene

mRNA expression in normal human tissues for LIME1 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for LIME1 Gene

SOURCE GeneReport for Unigene cluster for LIME1 Gene Hs.233220

mRNA Expression by UniProt/SwissProt for LIME1 Gene

Q9H400-LIME1_HUMAN
Tissue specificity: Expressed in peripheral blood lymphocytes, lymphoid tissues, and liver. Present in T-cells and plasma cells, and in various hematopoietic cell lines (at protein level).
genes like me logo Genes that share expressions with LIME1: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for LIME1 Gene

Orthologs for LIME1 Gene

This gene was present in the common ancestor of mammals.

Orthologs for LIME1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 36
  • 95 (a)
OneToMany
LIME1 35
  • 99.77 (n)
  • 99.32 (a)
cow
(Bos Taurus)
Mammalia -- 36
  • 63 (a)
OneToMany
LIME1 35
  • 79.1 (n)
  • 69.26 (a)
dog
(Canis familiaris)
Mammalia -- 36
  • 53 (a)
OneToMany
LIME1 35
  • 75.23 (n)
  • 59.17 (a)
mouse
(Mus musculus)
Mammalia Lime1 35
  • 76.04 (n)
  • 66.27 (a)
Lime1 16
Lime1 36
  • 61 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Lime1 35
  • 74.83 (n)
  • 65.06 (a)
Species with no ortholog for LIME1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for LIME1 Gene

ENSEMBL:
Gene Tree for LIME1 (if available)
TreeFam:
Gene Tree for LIME1 (if available)

Paralogs for LIME1 Gene

Paralogs for LIME1 Gene

genes like me logo Genes that share paralogs with LIME1: view

Variants for LIME1 Gene

Sequence variations from dbSNP and Humsavar for LIME1 Gene

SNP ID Clin Chr 20 pos Sequence Context AA Info Type MAF
rs1151623 -- 63,737,253(+) CTGTC(C/T)TGCCC intron-variant
rs1275330 -- 63,737,186(+) TGGCC(C/G)TGTGG intron-variant
rs2236510 -- 63,737,451(+) GCAGC(C/T)GCGGG intron-variant
rs2236511 -- 63,737,808(+) CCCAC(C/G)TCTAC intron-variant
rs112253079 -- 63,736,925(+) GATCC(C/G)CAAGA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LIME1 Gene

Variant ID Type Subtype PubMed ID
dgv4618n71 CNV Loss 21882294
nsv913190 CNV Loss 21882294
dgv1344e1 CNV Complex 17122850
nsv913213 CNV Loss 21882294
nsv470563 CNV Loss 18288195
dgv4644n71 CNV Loss 21882294
dgv1345e1 CNV Complex 17122850
nsv428381 CNV Gain+Loss 18775914
nsv913241 CNV Loss 21882294
dgv4645n71 CNV Loss 21882294
dgv4647n71 CNV Loss 21882294
nsv913249 CNV Loss 21882294
nsv913250 CNV Loss 21882294
nsv913255 CNV Gain 21882294
esv7227 CNV Loss 19470904
esv2722959 CNV Deletion 23290073
nsv913256 CNV Loss 21882294
dgv4648n71 CNV Loss 21882294
nsv913258 CNV Loss 21882294
dgv4649n71 CNV Loss 21882294
dgv4650n71 CNV Loss 21882294
dgv4651n71 CNV Loss 21882294
esv29394 CNV Loss 19812545
dgv523n27 CNV Loss 19166990

Relevant External Links for LIME1 Gene

HapMap Linkage Disequilibrium report
LIME1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LIME1 Gene

Disorders for LIME1 Gene

Relevant External Links for LIME1

Genetic Association Database (GAD)
LIME1
genes like me logo Genes that share disorders with LIME1: view

No data available for UniProtKB/Swiss-Prot for LIME1 Gene

Publications for LIME1 Gene

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  2. Large-scale cDNA transfection screening for genes related to cancer development and progression. (PMID: 15498874) Wan D. … Gu J. (Proc. Natl. Acad. Sci. U.S.A. 2004) 3 4
  3. Transmembrane adaptor molecules: a new category of lymphoid-cell markers. (PMID: 16160011) Tedoldi S. … Horejsi V. (Blood 2006) 3 4
  4. The DNA sequence and comparative analysis of human chromosome 20. (PMID: 11780052) Deloukas P. … Rogers J. (Nature 2001) 3 4
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3

Products for LIME1 Gene

Sources for LIME1 Gene

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