Human Gene LCP2 (ENST00000046794.10_8) from GENCODE V47lift37
  Description: lymphocyte cytosolic protein 2 (from RefSeq NM_005565.5)
Gencode Transcript: ENST00000046794.10_8
Gencode Gene: ENSG00000043462.13_11
Transcript (Including UTRs)
   Position: hg19 chr5:169,673,237-169,724,781 Size: 51,545 Total Exon Count: 21 Strand: -
Coding Region
   Position: hg19 chr5:169,675,701-169,724,615 Size: 48,915 Coding Exon Count: 21 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:169,673,237-169,724,781)mRNA (may differ from genome)Protein (533 aa)
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-  Comments and Description Text from UniProtKB
  ID: LCP2_HUMAN
DESCRIPTION: RecName: Full=Lymphocyte cytosolic protein 2; AltName: Full=SH2 domain-containing leukocyte protein of 76 kDa; AltName: Full=SLP-76 tyrosine phosphoprotein; Short=SLP76;
FUNCTION: Involved in T-cell antigen receptor mediated signaling.
SUBUNIT: Interacts with SLA. Interacts with CBLB (By similarity). Interacts with the adapter proteins GRB2 and FYB. Interacts with SHB. Interacts with PRAM1.
INTERACTION: Q8IVH8:MAP4K3; NbExp=5; IntAct=EBI-346946, EBI-1758170; Q99JP0:Map4k3 (xeno); NbExp=2; IntAct=EBI-346946, EBI-5324222;
SUBCELLULAR LOCATION: Cytoplasm (Probable).
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.
DOMAIN: The SH2 domain mediates interaction with SHB.
PTM: 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.
SIMILARITY: Contains 1 SAM (sterile alpha motif) domain.
SIMILARITY: Contains 1 SH2 domain.

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: LCP2
Diseases sorted by gene-association score: b cell linker protein deficiency (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 46.92 RPKM in Whole Blood
Total median expression: 208.89 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -59.50166-0.358 Picture PostScript Text
3' UTR -574.172464-0.233 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001660 - SAM
IPR013761 - SAM/pointed
IPR011510 - SAM_2
IPR000980 - SH2

Pfam Domains:
PF00017 - SH2 domain
PF07647 - SAM domain (Sterile alpha motif)

SCOP Domains:
47769 - SAM/Pointed domain
55550 - SH2 domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1H3H - NMR MuPIT 1YWO - X-ray 2EAP - NMR MuPIT 2ROR - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q13094
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0006955 immune response
GO:0007169 transmembrane receptor protein tyrosine kinase signaling pathway
GO:0030168 platelet activation
GO:0035556 intracellular signal transduction
GO:0038095 Fc-epsilon receptor signaling pathway
GO:0045576 mast cell activation
GO:0045860 positive regulation of protein kinase activity
GO:0050663 cytokine secretion
GO:0050852 T cell receptor signaling pathway

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005911 cell-cell junction
GO:0036398 TCR signalosome
GO:0044853 plasma membrane raft


-  Descriptions from all associated GenBank mRNAs
  AF086367 - Homo sapiens full length insert cDNA clone ZD66F04.
AK122637 - Homo sapiens cDNA FLJ16062 fis, clone THYMU2000120, highly similar to Homo sapiens lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa) (LCP2).
BC016618 - Homo sapiens lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa), mRNA (cDNA clone MGC:21114 IMAGE:4476274), complete cds.
AK292890 - Homo sapiens cDNA FLJ76481 complete cds, highly similar to Homo sapiens lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa) (LCP2), mRNA.
AK296098 - Homo sapiens cDNA FLJ57378 complete cds, highly similar to Lymphocyte cytosolic protein 2.
AK300000 - Homo sapiens cDNA FLJ58407 complete cds, highly similar to Lymphocyte cytosolic protein 2.
U20158 - Homo sapiens SLP-76 mRNA, complete cds.
JD529318 - Sequence 510342 from Patent EP1572962.
JD204030 - Sequence 185054 from Patent EP1572962.
JD399762 - Sequence 380786 from Patent EP1572962.
JD396550 - Sequence 377574 from Patent EP1572962.
JD169969 - Sequence 150993 from Patent EP1572962.
JD499415 - Sequence 480439 from Patent EP1572962.
BT007273 - Homo sapiens lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa) mRNA, complete cds.
FN432830 - Homo sapiens mRNA for lymphocyte cytosolic protein 2 (LCP2 gene), transcript variant Ins80.
DQ890681 - Synthetic construct clone IMAGE:100003311; FLH165053.01X; RZPDo839F03158D lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa) (LCP2) gene, encodes complete protein.
KJ891538 - Synthetic construct Homo sapiens clone ccsbBroadEn_00932 LCP2 gene, encodes complete protein.
DQ893863 - Synthetic construct Homo sapiens clone IMAGE:100008323; FLH165049.01L; RZPDo839F03157D lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa) (LCP2) gene, encodes complete protein.
AB527802 - Synthetic construct DNA, clone: pF1KB5922, Homo sapiens LCP2 gene for lymphocyte cytosolic protein 2, without stop codon, in Flexi system.
AK310369 - Homo sapiens cDNA, FLJ17411.
JD414658 - Sequence 395682 from Patent EP1572962.
JD119514 - Sequence 100538 from Patent EP1572962.
JD405650 - Sequence 386674 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q13094 (Reactome details) participates in the following event(s):

R-HSA-430135 p-SLP-76 binds ADAP
R-HSA-430158 p-SLP-76 binds VAV
R-HSA-430190 p-SLP-76 binds NCK
R-HSA-429449 Syk activation leads to SLP-76 activation
R-HSA-202241 Recruitment of SLP-76 to Gads
R-HSA-202331 Recruitment of PLC-gamma1 to SLP-76
R-HSA-202375 Recruitment of ITK to SLP-76
R-HSA-202216 Phosphorylation of SLP-76
R-HSA-213407 Disassociation of PLC-gamma1 from SLP-76
R-HSA-430201 p-SLP-76:ADAP binds Ena/VASP
R-HSA-430180 NCK recruits WASP
R-HSA-430183 NCK binds PAK
R-HSA-2396561 Recruitment of GADS:SLP-76 to p-5Y-LAT
R-HSA-2424485 Release of p-PLCG1
R-HSA-2424481 Recruitment of VAV and BTK to p-SLP-76
R-HSA-2730892 Recruitment of VAV to p-SLP-76
R-HSA-2396594 Phosphorylation of SLP-76 by p-SYK
R-HSA-2730851 Phosphorylation of SLP-76 by p-SYK
R-HSA-2396606 Recruitment of PLC-gamma to SLP-76 and p-5Y-LAT
R-HSA-202248 Phosphorylation of PLC-gamma1
R-HSA-2424487 Phosphorylation of PLC-gamma by p-BTK/p-SYK
R-HSA-2424484 Phosphorylation of BTK by p-SYK
R-HSA-2424486 Phosphorylation and activation of VAV2/VAV3 by SYK
R-HSA-2730888 Phosphorylation of PLC-gamma
R-HSA-2730858 Autophosphorylation of BTK/ITK
R-HSA-2730840 Activation of RAC1 by VAV
R-HSA-2730841 Phosphorylation and activation of VAV
R-HSA-2730885 Recruitment of TEC kinases to p-SLP-76
R-HSA-2730833 Phosphorylation of TEC kinases by p-SYK
R-HSA-2730889 Recruitment of PAK to the membrane by binding active RAC1
R-HSA-2730856 Autophosphorylation of PAK
R-HSA-2424476 Activation of RAC1 by VAV2/3
R-HSA-2730847 Hydrolysis of PIP2 by PLCG
R-HSA-202433 Generation of second messenger molecules
R-HSA-114604 GPVI-mediated activation cascade
R-HSA-202403 TCR signaling
R-HSA-76002 Platelet activation, signaling and aggregation
R-HSA-2424491 DAP12 signaling
R-HSA-2871796 FCERI mediated MAPK activation
R-HSA-1280218 Adaptive Immune System
R-HSA-109582 Hemostasis
R-HSA-2172127 DAP12 interactions
R-HSA-2454202 Fc epsilon receptor (FCERI) signaling
R-HSA-2871809 FCERI mediated Ca+2 mobilization
R-HSA-168256 Immune System
R-HSA-168249 Innate Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A8KA25, ENST00000046794.1, ENST00000046794.2, ENST00000046794.3, ENST00000046794.4, ENST00000046794.5, ENST00000046794.6, ENST00000046794.7, ENST00000046794.8, ENST00000046794.9, LCP2_HUMAN, NM_005565, Q13094, Q53XV4, uc317bzs.1, uc317bzs.2
UCSC ID: ENST00000046794.10_8
RefSeq Accession: NM_005565.5
Protein: Q13094 (aka LCP2_HUMAN)

-  Gene Model Information
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.