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Aliases for LY96 Gene

Aliases for LY96 Gene

  • Lymphocyte Antigen 96 2 3 5
  • Protein MD-2 3 4
  • ESOP-1 3 4
  • Ly-96 3 4
  • MD2 3 4
  • Myeloid Differentiation Protein-2 3
  • ESOP1 4
  • MD-2 3

External Ids for LY96 Gene

Previous GeneCards Identifiers for LY96 Gene

  • GC08P074844
  • GC08P074626
  • GC08P074953
  • GC08P075066
  • GC08P070394

Summaries for LY96 Gene

Entrez Gene Summary for LY96 Gene

  • This gene encodes a protein which associates with toll-like receptor 4 on the cell surface and confers responsiveness to lipopolysaccyaride (LPS), thus providing a link between the receptor and LPS signaling. Studies of the mouse ortholog suggest that this gene may be involved in endotoxin neutralization. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Sep 2010]

GeneCards Summary for LY96 Gene

LY96 (Lymphocyte Antigen 96) is a Protein Coding gene. Diseases associated with LY96 include intestinal botulism and wound botulism. Among its related pathways are A-beta Pathways: Uptake and Degradation and Immune System. GO annotations related to this gene include coreceptor activity and lipopolysaccharide receptor activity.

UniProtKB/Swiss-Prot for LY96 Gene

  • Binds bacterial lipopolysaccharide (LPS) (PubMed:17803912, PubMed:17569869). Cooperates with TLR4 in the innate immune response to bacterial lipopolysaccharide (LPS), and with TLR2 in the response to cell wall components from Gram-positive and Gram-negative bacteria (PubMed:11160242, PubMed:11593030). Enhances TLR4-dependent activation of NF-kappa-B (PubMed:10359581). Cells expressing both LY96 and TLR4, but not TLR4 alone, respond to LPS (PubMed:10359581).

Gene Wiki entry for LY96 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LY96 Gene

Genomics for LY96 Gene

Regulatory Elements for LY96 Gene

Promoters for LY96 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around LY96 on UCSC Golden Path with GeneCards custom track

Genomic Location for LY96 Gene

Chromosome:
8
Start:
73,991,329 bp from pter
End:
74,032,562 bp from pter
Size:
41,234 bases
Orientation:
Plus strand

Genomic View for LY96 Gene

Genes around LY96 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LY96 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LY96 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LY96 Gene

Proteins for LY96 Gene

  • Protein details for LY96 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y6Y9-LY96_HUMAN
    Recommended name:
    Lymphocyte antigen 96
    Protein Accession:
    Q9Y6Y9
    Secondary Accessions:
    • B3Y6A5
    • E5RJJ7

    Protein attributes for LY96 Gene

    Size:
    160 amino acids
    Molecular mass:
    18546 Da
    Quaternary structure:
    • Heterogeneous homopolymer formed from homodimers; disulfide-linked (PubMed:11593030, PubMed:12642668). Belongs to the lipopolysaccharide (LPS) receptor, a multi-protein complex containing at least CD14, LY96 and TLR4 (PubMed:11274165). Binds to the extracellular domains of TLR2 and TLR4 (PubMed:10359581, PubMed:11593030, PubMed:17803912). Ligand binding induces interaction with TLR4 and oligomerization of the complex.

    Three dimensional structures from OCA and Proteopedia for LY96 Gene

    Alternative splice isoforms for LY96 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LY96 Gene

Proteomics data for LY96 Gene at MOPED

Post-translational modifications for LY96 Gene

Other Protein References for LY96 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for LY96 Gene

Domains & Families for LY96 Gene

Protein Domains for LY96 Gene

Suggested Antigen Peptide Sequences for LY96 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LY96: view

No data available for Gene Families and UniProtKB/Swiss-Prot for LY96 Gene

Function for LY96 Gene

Molecular function for LY96 Gene

UniProtKB/Swiss-Prot Function:
Binds bacterial lipopolysaccharide (LPS) (PubMed:17803912, PubMed:17569869). Cooperates with TLR4 in the innate immune response to bacterial lipopolysaccharide (LPS), and with TLR2 in the response to cell wall components from Gram-positive and Gram-negative bacteria (PubMed:11160242, PubMed:11593030). Enhances TLR4-dependent activation of NF-kappa-B (PubMed:10359581). Cells expressing both LY96 and TLR4, but not TLR4 alone, respond to LPS (PubMed:10359581).
genes like me logo Genes that share phenotypes with LY96: view

Animal Models for LY96 Gene

MGI Knock Outs for LY96:

Animal Model Products

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LY96 Gene

Localization for LY96 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LY96 Gene

Secreted, extracellular space. Secreted. Note=Retained in the extracellular space at the cell surface by interaction with TLR4 (PubMed:10359581). {ECO:0000269 PubMed:10359581, ECO:0000269 PubMed:11593030}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LY96 Gene COMPARTMENTS Subcellular localization image for LY96 gene
Compartment Confidence
endosome 5
extracellular 5
plasma membrane 5
nucleus 2
endoplasmic reticulum 1
golgi apparatus 1
vacuole 1

Gene Ontology (GO) - Cellular Components for LY96 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0010008 endosome membrane TAS --
genes like me logo Genes that share ontologies with LY96: view

Pathways & Interactions for LY96 Gene

genes like me logo Genes that share pathways with LY96: view

Gene Ontology (GO) - Biological Process for LY96 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002224 toll-like receptor signaling pathway TAS --
GO:0002755 MyD88-dependent toll-like receptor signaling pathway TAS --
GO:0007166 cell surface receptor signaling pathway TAS 10359581
GO:0007249 I-kappaB kinase/NF-kappaB signaling TAS --
GO:0012501 programmed cell death TAS --
genes like me logo Genes that share ontologies with LY96: view

No data available for SIGNOR curated interactions for LY96 Gene

Drugs & Compounds for LY96 Gene

(4) Drugs for LY96 Gene - From: Novoseek and DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
3-Hydroxy-Myristic Acid Experimental Pharma Target 0
MYRISTIC ACID Experimental Pharma Target 0

(3) Additional Compounds for LY96 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with LY96: view

Transcripts for LY96 Gene

mRNA/cDNA for LY96 Gene

(3) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(18) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for LY96 Gene

Lymphocyte antigen 96:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LY96 Gene

No ASD Table

Relevant External Links for LY96 Gene

GeneLoc Exon Structure for
LY96
ECgene alternative splicing isoforms for
LY96

Expression for LY96 Gene

mRNA expression in normal human tissues for LY96 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LY96 Gene

This gene is overexpressed in Whole Blood (x10.3) and Spleen (x5.0).

Protein differential expression in normal tissues from HIPED for LY96 Gene

This gene is overexpressed in Gallbladder (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for LY96 Gene



SOURCE GeneReport for Unigene cluster for LY96 Gene Hs.726603

genes like me logo Genes that share expression patterns with LY96: view

Protein tissue co-expression partners for LY96 Gene

Primer Products

In Situ Assay Products

No data available for mRNA Expression by UniProt/SwissProt for LY96 Gene

Orthologs for LY96 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LY96 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia MD2 36
  • 99 (a)
OneToOne
LY96 35
  • 100 (n)
  • 100 (a)
cow
(Bos Taurus)
Mammalia LY96 35
  • 77.08 (n)
  • 65 (a)
MD2 36
  • 64 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LY96 36
  • 72 (a)
OneToOne
LY96 35
  • 81.25 (n)
  • 72.5 (a)
mouse
(Mus musculus)
Mammalia Ly96 35
  • 75.62 (n)
  • 64.37 (a)
Ly96 16
Ly96 36
  • 64 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LY96 36
  • 49 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ly96 35
  • 74.73 (n)
  • 64.84 (a)
chicken
(Gallus gallus)
Aves LY96 36
  • 32 (a)
OneToOne
Species with no ortholog for LY96:
  • 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)
  • 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)
  • 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 LY96 Gene

ENSEMBL:
Gene Tree for LY96 (if available)
TreeFam:
Gene Tree for LY96 (if available)

Paralogs for LY96 Gene

No data available for Paralogs for LY96 Gene

Variants for LY96 Gene

Sequence variations from dbSNP and Humsavar for LY96 Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type
rs11466004 - 74,029,040(+) ACCAA(C/T)CTAAT intron-variant, reference, missense
rs6472812 - 74,004,849(+) TGAAA(A/G)GATCC intron-variant, reference, missense
rs1481858 -- 73,992,840(-) acaca(C/T)acaGT intron-variant
rs1426060 -- 74,006,636(+) TTCCT(C/T)CACTT intron-variant
rs1809440 -- 73,990,288(-) atcac(C/T)tgagg upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for LY96 Gene

Variant ID Type Subtype PubMed ID
nsv831355 CNV Loss 17160897
nsv891013 CNV Gain 21882294
esv2668168 CNV Deletion 23128226
nsv6259 CNV Insertion 18451855

Variation tolerance for LY96 Gene

Residual Variation Intolerance Score: 45.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.30; 25.89% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LY96 Gene

HapMap Linkage Disequilibrium report
LY96
Human Gene Mutation Database (HGMD)
LY96

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LY96 Gene

Disorders for LY96 Gene

MalaCards: The human disease database

(15) MalaCards diseases for LY96 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
intestinal botulism
  • intestinal colonization botulism
wound botulism
  • cutaneous infectious botulism
interstitial emphysema
neurogenic bowel
neurotic disorder
  • depressive neurosis
- elite association - COSMIC cancer census association via MalaCards
Search LY96 in MalaCards View complete list of genes associated with diseases

Relevant External Links for LY96

Genetic Association Database (GAD)
LY96
Human Genome Epidemiology (HuGE) Navigator
LY96
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LY96
genes like me logo Genes that share disorders with LY96: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LY96 Gene

Publications for LY96 Gene

  1. MD-2, a molecule that confers lipopolysaccharide responsiveness on Toll-like receptor 4. (PMID: 10359581) Shimazu R. … Kimoto M. (J. Exp. Med. 1999) 2 3 4 67
  2. Decreased expression of Toll-like receptor-4 and MD-2 correlates with intestinal epithelial cell protection against dysregulated proinflammatory gene expression in response to bacterial lipopolysaccharide. (PMID: 11466383) Abreu M.T. … Arditi M. (J. Immunol. 2001) 2 3 23
  3. Regulation of Toll-like receptor 4-associated MD-2 in intestinal epithelial cells: a comprehensive analysis. (PMID: 19710105) Vamadevan A.S. … Abreu M.T. (Innate Immun 2010) 3 23
  4. Identification of a novel human MD-2 splice variant that negatively regulates Lipopolysaccharide-induced TLR4 signaling. (PMID: 20435923) Gray P. … Arditi M. (J. Immunol. 2010) 3 23
  5. The structural basis of lipopolysaccharide recognition by the TLR4- MD-2 complex. (PMID: 19252480) Park B.S. … Lee J.-O. (Nature 2009) 3 23

Products for LY96 Gene

Sources for LY96 Gene

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