Skap1 src family associated phosphoprotein 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Skap1provided by MGI
Official Full Name: src family associated phosphoprotein 1provided by MGI
Primary source: MGI:MGI:1925723
See related: Ensembl:ENSMUSG00000057058 AllianceGenome:MGI:1925723
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Scap1; Skap-55; 1700091G21Rik
Summary: Predicted to enable SH2 domain binding activity; protein kinase binding activity; and protein phosphatase binding activity. Acts upstream of or within positive regulation of cell adhesion and protein localization to plasma membrane. Located in cell-cell junction; cytosol; and plasma membrane. Part of T cell receptor complex. Orthologous to human SKAP1 (src kinase associated phosphoprotein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in thymus adult (RPKM 30.5), spleen adult (RPKM 5.2) and 2 other tissues See more
Orthologs: human all
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Genomic context

Location:: 11 D; 11 59.93 cM

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (96355396..96650448)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (96464570..96759622)

Chromosome 11 - NC_000077.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

SKAP1 can affect the function of talin in T-cells needed for optimal T-cell/dendritic cell conjugation
Title: Non-cleavable talin rescues defect in the T-cell conjugation of T-cells deficient in the immune adaptor SKAP1.
this study shows that Skap1-deficient (skap1-/-) mice are highly resistant to the induction of collagen-induced arthritis
Title: T-cell immune adaptor SKAP1 regulates the induction of collagen-induced arthritis in mice.
In this study, the authors identified that the ADAP-SKAP55 signaling module reduced CD8(+) cytotoxic T lymphocyte cytotoxicity and enhanced PD-1 expression in a Fyn-, Ca(2+)-, and NFATc1-dependent manner.
Title: ADAP and SKAP55 deficiency suppresses PD-1 expression in CD8+ cytotoxic T lymphocytes for enhanced anti-tumor immunotherapy.
Data suggest that the presence or absence of associated SKAP55 defines functionally distinct pools of ADAP.
Title: The pleckstrin homology domain in the SKAP55 adapter protein defines the ability of the adapter protein ADAP to regulate integrin function and NF-kappaB activation.
HPK1 associates with SKAP1 to negatively regulate Rap1-mediated B-lymphocyte adhesion.
Title: HPK1 associates with SKAP-HOM to negatively regulate Rap1-mediated B-lymphocyte adhesion.
SKAP1 is dispensable for both CXCL12 and CCL21 induced T-cell migration.
Title: SKAP1 is dispensable for chemokine-induced migration of primary T-cells.
findings define a T cell receptor "inside-out" pathway via N-SKAP1-C-RapL that regulates T cell adhesion, motility, and arrest times with dendritic cells in lymph nodes.
Title: T cell receptor "inside-out" pathway via signaling module SKAP1-RapL regulates T cell motility and interactions in lymph nodes.
Results identify a clear effector role for SKAP-55 in LFA-1 adhesion in peripheral T cells and demonstrate that dependency on SKAP-55 and ADAP differs among T cells and differs with the strength of the TCR signal.
Title: Functional defects of SKAP-55-deficient T cells identify a regulatory role for the adaptor in LFA-1 adhesion.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Gene trapped (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables SH2 domain binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase binding	ISO Inferred from Sequence Orthology more info
enables protein phosphatase binding	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in T cell receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within adaptive immune response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within immune system process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of adaptive immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cell adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell-cell adhesion mediated by integrin	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of heterotypic cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of integrin activation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of leukocyte cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization to plasma membrane	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of T cell receptor complex	IDA Inferred from Direct Assay more info	PubMed
located_in cell-cell junction	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in immunological synapse	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane raft	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: src kinase-associated phosphoprotein 1

Names: ortholog of human src family associated phosphoprotein 1 SCAP1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001033186.3 → NP_001028358.1 src kinase-associated phosphoprotein 1 isoform 1

See identical proteins and their annotated locations for NP_001028358.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and it encodes the longest protein (isoform 1).

Source sequence(s)

AK040068, AK137942

Consensus CDS

CCDS25301.1

UniProtKB/Swiss-Prot

Q3TE54, Q3UUT7, Q3UUV5, Q3UUX6

UniProtKB/TrEMBL

B2RWZ1

Related

ENSMUSP00000099443.5, ENSMUST00000103154.11

Conserved Domains (3) summary

cd12044
Location:294 → 346

SH3_SKAP1; Src Homology 3 domain of Src Kinase-Associated Phosphoprotein 1

cd13380
Location:108 → 213

PH_Skap1; Src kinase-associated phosphoprotein 1 Pleckstrin homology (PH) domain

pfam00169
Location:108 → 210

PH; PH domain
NM_001177898.1 → NP_001171369.1 src kinase-associated phosphoprotein 1 isoform 2

See identical proteins and their annotated locations for NP_001171369.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks two alternate exons, one of which changes the reading frame, compared to variant 1. The resulting protein (isoform 2) has a shorter and distinct C-terminus when it is compared to isoform 1.

Source sequence(s)

AK040068, AK137942, AK138030

Consensus CDS

CCDS48892.1

UniProtKB/TrEMBL

B7ZWB3

Related

ENSMUSP00000098090.4, ENSMUST00000100521.10

Conserved Domains (3) summary

cd13380
Location:108 → 213

PH_Skap1; Src kinase-associated phosphoprotein 1 Pleckstrin homology (PH) domain

pfam00169
Location:108 → 210

PH; PH domain

cl17036
Location:278 → 306

SH3; Src Homology 3 domain superfamily
NM_001177899.1 → NP_001171370.1 src kinase-associated phosphoprotein 1 isoform 3

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks an alternate, in-frame exon, compared to variant 1. The resulting protein (isoform 3) is shorter when it is compared to isoform 1.

Source sequence(s)

AK040068, AK137942, BC150764, BY723539

Consensus CDS

CCDS48891.1

UniProtKB/TrEMBL

B2RWZ1

Related

ENSMUSP00000071445.8, ENSMUST00000071510.14

Conserved Domains (3) summary

cd12044
Location:278 → 330

SH3_SKAP1; Src Homology 3 domain of Src Kinase-Associated Phosphoprotein 1

cd13380
Location:108 → 213

PH_Skap1; Src kinase-associated phosphoprotein 1 Pleckstrin homology (PH) domain

pfam00169
Location:108 → 210

PH; PH domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000077.7 Reference GRCm39 C57BL/6J

Range

96355396..96650448

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006534508.3 → XP_006534571.1 src kinase-associated phosphoprotein 1 isoform X1

UniProtKB/TrEMBL

B7ZWB3

Conserved Domains (2) summary

cd13380
Location:108 → 213

PH_Skap1; Src kinase-associated phosphoprotein 1 Pleckstrin homology (PH) domain

cl17036
Location:294 → 322

SH3; Src Homology 3 domain superfamily
XM_017314838.1 → XP_017170327.1 src kinase-associated phosphoprotein 1 isoform X2

Conserved Domains (2) summary

cl17036
Location:240 → 268

SH3; Src Homology 3 domain superfamily

cl17171
Location:92 → 159

PH-like; Pleckstrin homology-like domain
XM_017314839.1 → XP_017170328.1 src kinase-associated phosphoprotein 1 isoform X3

Conserved Domains (2) summary

cl17036
Location:224 → 252

SH3; Src Homology 3 domain superfamily

cl17171
Location:92 → 159

PH-like; Pleckstrin homology-like domain