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Aliases for LCP2 Gene

Aliases for LCP2 Gene

  • Lymphocyte Cytosolic Protein 2 2 3 3 5
  • SH2 Domain-Containing Leukocyte Protein Of 76 KDa 3 4
  • 76 KDa Tyrosine Phosphoprotein 2 3
  • SLP-76 Tyrosine Phosphoprotein 3 4
  • SLP76 3 4
  • Lymphocyte Cytosolic Protein 2 (SH2 Domain Containing Leukocyte Protein Of 76kDa) 2
  • Lymphocyte Cytosolic Protein 2 (SH2 Domain-Containing Leukocyte Protein Of 76kD) 2
  • SH2 Domain-Containing Leukocyte Protein Of 76kD 2
  • SLP-76 3

External Ids for LCP2 Gene

Previous HGNC Symbols for LCP2 Gene

  • SLP76

Previous GeneCards Identifiers for LCP2 Gene

  • GC05M169910
  • GC05M170378
  • GC05M169610
  • GC05M169655
  • GC05M169607
  • GC05M169675
  • GC05M164773
  • GC05M169673

Summaries for LCP2 Gene

Entrez Gene Summary for LCP2 Gene

  • This gene encodes an adapter protein that acts as a substrate of the T cell antigen receptor (TCR)-activated protein tyrosine kinase pathway. The encoded protein associates with growth factor receptor bound protein 2, and is thought to play a role TCR-mediated intracellular signal transduction. A similar protein in mouse plays a role in normal T-cell development and activation. Mice lacking this gene show subcutaneous and intraperitoneal fetal hemorrhaging, dysfunctional platelets and impaired viability. [provided by RefSeq, Nov 2016]

GeneCards Summary for LCP2 Gene

LCP2 (Lymphocyte Cytosolic Protein 2) is a Protein Coding gene. Diseases associated with LCP2 include B Cell Linker Protein Deficiency. Among its related pathways are Immune response Fc epsilon RI pathway and T cell receptor signaling pathway. An important paralog of this gene is BLNK.

UniProtKB/Swiss-Prot for LCP2 Gene

  • Involved in T-cell antigen receptor mediated signaling.

Gene Wiki entry for LCP2 Gene

Additional gene information for LCP2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LCP2 Gene

Genomics for LCP2 Gene

GeneHancer (GH) Regulatory Elements for LCP2 Gene

Promoters and enhancers for LCP2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05J170291 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 650.7 +3.1 3090 8 HDGF PKNOX1 SMAD1 RB1 STAT5A BATF RAD21 YY1 ZNF766 ZNF366 LCP2 KCNMB1 CTD-2270F17.1 C5orf58 GC05M170247
GH05J170329 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 38.8 -35.5 -35549 8.1 HDGF PKNOX1 SMAD1 ARNT YBX1 FEZF1 IRF4 E2F8 FOS MCM3 LCP2 KCNMB1 LINC01366 GABRP CTD-2270F17.1 C5orf58 KCNIP1
GH05J170265 Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 23.2 +29.3 29256 7.3 ZSCAN4 RAD21 ZNF143 ETV6 RUNX3 ZNF654 ZBTB11 REST ZNF623 IKZF1 LCP2 KCNMB1 GC05M170247
GH05J170300 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 23.8 -4.1 -4062 3.9 CTCF MAX CEBPG ZNF766 ELK1 POLR2A VEZF1 SCRT2 SRF RNF2 LCP2 C5orf58 KCNMB1 ENSG00000250274
GH05J170311 Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 19 -15.3 -15270 4.2 CTCF HDAC1 ATF1 PKNOX1 USF1 MAX ZMYM3 EBF1 EED NFYB ENSG00000250274 LCP2 KCNMB1 KCNIP1 CTD-2270F17.1 LINC01366
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LCP2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LCP2 gene promoter:
  • Meis-1b
  • Meis-1
  • HOXA9B
  • HOXA9
  • FOXD3
  • Hlf
  • Nkx2-2
  • Pax-4a
  • AML1a
  • Bach2

Genomic Locations for LCP2 Gene

Genomic Locations for LCP2 Gene
chr5:170,246,237-170,298,227
(GRCh38/hg38)
Size:
51,991 bases
Orientation:
Minus strand
chr5:169,673,241-169,725,231
(GRCh37/hg19)
Size:
51,991 bases
Orientation:
Minus strand

Genomic View for LCP2 Gene

Genes around LCP2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LCP2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LCP2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LCP2 Gene

Proteins for LCP2 Gene

  • Protein details for LCP2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13094-LCP2_HUMAN
    Recommended name:
    Lymphocyte cytosolic protein 2
    Protein Accession:
    Q13094
    Secondary Accessions:
    • A8KA25
    • Q53XV4

    Protein attributes for LCP2 Gene

    Size:
    533 amino acids
    Molecular mass:
    60188 Da
    Quaternary structure:
    • Interacts with SLA. Interacts with CBLB (By similarity). Interacts with GRB2 (PubMed:7706237). Interacts with SHB (PubMed:12084069). Interacts with PRAM1 (PubMed:11301322). Interacts (via SH2 domain) with CD6 (via tyrosine phosphorylated C-terminus) (PubMed:16914752, PubMed:24584089). Interacts with FYB1 and the phosphorylated form of FYB2 (PubMed:27335501).

    Three dimensional structures from OCA and Proteopedia for LCP2 Gene

neXtProt entry for LCP2 Gene

Post-translational modifications for LCP2 Gene

  • Phosphorylated after T-cell receptor activation by ZAP70, ITK and TXK, which leads to the up-regulation of Th1 preferred cytokine IL-2. SYK-dependent phosphorylation is required for recruitment of PI3K signaling components.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LCP2 Gene

No data available for DME Specific Peptides for LCP2 Gene

Domains & Families for LCP2 Gene

Gene Families for LCP2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Graphical View of Domain Structure for InterPro Entry

Q13094

UniProtKB/Swiss-Prot:

LCP2_HUMAN :
  • The SH2 domain mediates interaction with phosphorylated CD6 (PubMed:16914752). The SH2 domain mediates interaction with SHB (PubMed:12084069).
Domain:
  • The SH2 domain mediates interaction with phosphorylated CD6 (PubMed:16914752). The SH2 domain mediates interaction with SHB (PubMed:12084069).
genes like me logo Genes that share domains with LCP2: view

Function for LCP2 Gene

Molecular function for LCP2 Gene

UniProtKB/Swiss-Prot Function:
Involved in T-cell antigen receptor mediated signaling.
GENATLAS Biochemistry:
leukocyte protein 76kDa (SLP-76),expressed in cells of hematopoietic origin,phosphorylated by TCR coupled tyrosine kinase

Phenotypes From GWAS Catalog for LCP2 Gene

Gene Ontology (GO) - Molecular Function for LCP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 7706237
genes like me logo Genes that share ontologies with LCP2: view
genes like me logo Genes that share phenotypes with LCP2: view

Animal Models for LCP2 Gene

MGI Knock Outs for LCP2:

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LCP2 Gene

Localization for LCP2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LCP2 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LCP2 gene
Compartment Confidence
plasma membrane 5
cytosol 5
cytoskeleton 2
nucleus 2
extracellular 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for LCP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
GO:0005911 cell-cell junction IEA --
GO:0036398 TCR signalosome IDA 20551903
GO:0044853 plasma membrane raft IDA 20551903
genes like me logo Genes that share ontologies with LCP2: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LCP2 Gene

Pathways & Interactions for LCP2 Gene

genes like me logo Genes that share pathways with LCP2: view

SIGNOR curated interactions for LCP2 Gene

Is activated by:
Is inactivated by:

Gene Ontology (GO) - Biological Process for LCP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006955 immune response TAS 7706237
GO:0007169 transmembrane receptor protein tyrosine kinase signaling pathway TAS 7706237
GO:0030168 platelet activation TAS --
GO:0035556 intracellular signal transduction IBA --
GO:0038095 Fc-epsilon receptor signaling pathway TAS --
genes like me logo Genes that share ontologies with LCP2: view

Drugs & Compounds for LCP2 Gene

(5) Drugs for LCP2 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(6) Additional Compounds for LCP2 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with LCP2: view

Transcripts for LCP2 Gene

mRNA/cDNA for LCP2 Gene

Unigene Clusters for LCP2 Gene

Lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LCP2 Gene

No ASD Table

Relevant External Links for LCP2 Gene

GeneLoc Exon Structure for
LCP2
ECgene alternative splicing isoforms for
LCP2

Expression for LCP2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LCP2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LCP2 Gene

This gene is overexpressed in Whole Blood (x21.7) and Spleen (x4.8).

Protein differential expression in normal tissues from HIPED for LCP2 Gene

This gene is overexpressed in NK cells (18.0), Peripheral blood mononuclear cells (12.3), CD8 Tcells (10.0), and Platelet (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LCP2 Gene



Protein tissue co-expression partners for LCP2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LCP2 Gene:

LCP2

SOURCE GeneReport for Unigene cluster for LCP2 Gene:

Hs.304475

mRNA Expression by UniProt/SwissProt for LCP2 Gene:

Q13094-LCP2_HUMAN
Tissue specificity: Highly expressed in spleen, thymus and peripheral blood leukocytes. Highly expressed also in T-cell and monocytic cell lines, expressed at lower level in B-cell lines. Not detected in fibroblast or neuroblastoma cell lines.

Evidence on tissue expression from TISSUES for LCP2 Gene

  • Blood(4.7)
  • Liver(4.2)
  • Bone marrow(2.5)
  • Spleen(2.3)
  • Lymph node(2.2)
genes like me logo Genes that share expression patterns with LCP2: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for LCP2 Gene

Orthologs for LCP2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LCP2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LCP2 34 33
  • 99.44 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LCP2 34 33
  • 88.06 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lcp2 33
  • 85.01 (n)
cow
(Bos Taurus)
Mammalia LCP2 34 33
  • 84.96 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Lcp2 16 34 33
  • 84.57 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 75 (a)
ManyToMany
chicken
(Gallus gallus)
Aves LCP2 33
  • 65.38 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia lcp2 33
  • 54.02 (n)
zebrafish
(Danio rerio)
Actinopterygii lcp2b 34 33
  • 54.15 (n)
ManyToMany
Species where no ortholog for LCP2 was found in the sources mined by GeneCards:
  • 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)
  • oppossum (Monodelphis domestica)
  • 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 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LCP2 Gene

ENSEMBL:
Gene Tree for LCP2 (if available)
TreeFam:
Gene Tree for LCP2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LCP2: view image

Paralogs for LCP2 Gene

Paralogs for LCP2 Gene

(1) SIMAP similar genes for LCP2 Gene using alignment to 6 proteins:

  • LCP2_HUMAN
  • C7C5T4_HUMAN
  • E5RKA2_HUMAN
  • E7ESF6_HUMAN
  • Q14759_HUMAN
  • Q14760_HUMAN
genes like me logo Genes that share paralogs with LCP2: view

Variants for LCP2 Gene

Sequence variations from dbSNP and Humsavar for LCP2 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000012215 -- 170,259,719(-) C/A intron_variant
rs1000043646 -- 170,260,007(-) A/C intron_variant
rs1000255388 -- 170,282,537(-) C/T intron_variant
rs1000288004 -- 170,282,852(-) G/A intron_variant
rs1000439422 -- 170,277,494(-) T/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LCP2 Gene

Variant ID Type Subtype PubMed ID
esv2304012 CNV deletion 18987734
nsv462515 CNV loss 19166990
nsv471054 CNV loss 18288195
nsv5125 CNV insertion 18451855
nsv600260 CNV loss 21841781
nsv830547 CNV gain+loss 17160897
nsv950440 CNV duplication 24416366

Variation tolerance for LCP2 Gene

Residual Variation Intolerance Score: 52.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.35; 26.71% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LCP2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LCP2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LCP2 Gene

Disorders for LCP2 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LCP2 Gene - From: DISEASES

Disorder Aliases PubMed IDs
b cell linker protein deficiency
  • b-cell linker protein deficiency
- elite association - COSMIC cancer census association via MalaCards
Search LCP2 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LCP2

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with LCP2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LCP2 Gene

Publications for LCP2 Gene

  1. CD6 regulates T-cell responses through activation-dependent recruitment of the positive regulator SLP-76. (PMID: 16914752) Hassan NJ … Brown MH (Molecular and cellular biology 2006) 3 4 22 58
  2. Association of the Src homology 2 domain-containing leukocyte phosphoprotein of 76 kD (SLP-76) with the p85 subunit of phosphoinositide 3-kinase. (PMID: 15388330) Shim EK … Lee JR (FEBS letters 2004) 3 4 22 58
  3. Molecular cloning of SLP-76, a 76-kDa tyrosine phosphoprotein associated with Grb2 in T cells. (PMID: 7706237) Jackman JK … Findell PR (The Journal of biological chemistry 1995) 2 3 4 58
  4. ARAP, a Novel Adaptor Protein, Is Required for TCR Signaling and Integrin-Mediated Adhesion. (PMID: 27335501) Jung SH … Lee JR (Journal of immunology (Baltimore, Md. : 1950) 2016) 3 4 58
  5. Quantitative proteomics analysis of signalosome dynamics in primary T cells identifies the surface receptor CD6 as a Lat adaptor-independent TCR signaling hub. (PMID: 24584089) Roncagalli R … Malissen B (Nature immunology 2014) 3 4 58

Products for LCP2 Gene

Sources for LCP2 Gene

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