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LSP1 lymphocyte specific protein 1 [ Homo sapiens (human) ]

Gene ID: 4046, updated on 1-Jun-2020

Summary

Official Symbol
LSP1provided by HGNC
Official Full Name
lymphocyte specific protein 1provided by HGNC
Primary source
HGNC:HGNC:6707
See related
Ensembl:ENSG00000130592 MIM:153432
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
WP34; pp52
Summary
This gene encodes an intracellular F-actin binding protein. The protein is expressed in lymphocytes, neutrophils, macrophages, and endothelium and may regulate neutrophil motility, adhesion to fibrinogen matrix proteins, and transendothelial migration. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]
Expression
Broad expression in spleen (RPKM 60.6), appendix (RPKM 43.3) and 19 other tissues See more
Orthologs

Genomic context

See LSP1 in Genome Data Viewer
Location:
11p15.5
Exon count:
16
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (1853084..1892263)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (1874200..1913493)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984299 Neighboring gene troponin I2, fast skeletal type Neighboring gene microRNA 4298 Neighboring gene microRNA 7847 Neighboring gene long intergenic non-protein coding RNA 1150 Neighboring gene troponin T3, fast skeletal type

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
A possible mechanism behind autoimmune disorders discovered by genome-wide linkage and association analysis in celiac disease.
NHGRI GWA Catalog
Genome-wide association study identifies five new breast cancer susceptibility loci.
NHGRI GWA Catalog
Genome-wide association study identifies multiple loci associated with bladder cancer risk.
NHGRI GWA Catalog
Genome-wide association study identifies multiple loci associated with both mammographic density and breast cancer risk.
NHGRI GWA Catalog
Genome-wide association study identifies novel breast cancer susceptibility loci.
NHGRI GWA Catalog
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
NHGRI GWA Catalog
Large-scale genotyping identifies 41 new loci associated with breast cancer risk.
NHGRI GWA Catalog
Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 upregulates the expression of lymphocyte-specific protein 1 (LSP1) in human B cells PubMed
env Inhibition of M-tropic HIV-1 gp120-induced transendothelial migration by SLIT2N involves SLIT2N-mediated enhancement of co-localization of Robo1 with WASp and LSP1 in immature monocyte-derived dendritic cells PubMed
env SLIT2N, an active fragment of SLIT2, inhibits M-tropic HIV-1 gp120-induced association of LSP1, Wiskott-Aldrich Syndrome protein (WASp), Actin-Related Protein 2/3 (Arp2/3), and beta-actin in immature monocyte-derived dendritic cells PubMed
env HIV-1 gp120-induced migration of dendritic cells is regulated by a novel kinase cascade involving Pyk2, p38 MAP kinase, and LSP1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
actin binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
cellular defense response TAS
Traceable Author Statement
more info
PubMed 
signal transduction IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
actin cytoskeleton TAS
Traceable Author Statement
more info
PubMed 
extracellular exosome HDA PubMed 
membrane HDA PubMed 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
lymphocyte-specific protein 1
Names
47 kDa actin binding protein
52 kDa phosphoprotein
F-actin binding and cytoskeleton associated protein
leufactin (leukocyte F-actin binding protein)
leukocyte-specific protein 1
lymphocyte-specific antigen WP34

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_011509.1 RefSeqGene

    Range
    5115..44294
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001013253.2NP_001013271.1  lymphocyte-specific protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001013271.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate exon and lacks two exons in the 5' region, and uses a downstream start codon, compared to variant 5. The resulting protein (isoform 2) has a shorter N-terminus compared to isoform 3. Variants 2, 3, 4 and 6 encode the same protein (isoform 2).
    Source sequence(s)
    AC051649, BC001785
    Consensus CDS
    CCDS31335.1
    UniProtKB/Swiss-Prot
    P33241
    Related
    ENSP00000383932.2, ENST00000405957.6
    Conserved Domains (1) summary
    pfam02029
    Location:129252
    Caldesmon; Caldesmon
  2. NM_001013254.1NP_001013272.1  lymphocyte-specific protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001013272.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an alternate exon and lacks two exons in the 5' region, and uses a downstream start codon, compared to variant 5. The resulting protein (isoform 2) has a shorter N-terminus compared to isoform 3. Variants 2, 3, 4 and 6 encode the same protein (isoform 2).
    Source sequence(s)
    AC051649, AK056576, BC001785
    Consensus CDS
    CCDS31335.1
    UniProtKB/Swiss-Prot
    P33241
    Related
    ENSP00000384022.2, ENST00000406638.6
    Conserved Domains (1) summary
    pfam02029
    Location:129252
    Caldesmon; Caldesmon
  3. NM_001013255.1NP_001013273.1  lymphocyte-specific protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001013273.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains an alternate exon and lacks two exons in the 5' region, and uses a downstream start codon, compared to variant 5. The resulting protein (isoform 2) has a shorter N-terminus compared to isoform 3. Variants 2, 3, 4 and 6 encode the same protein (isoform 2).
    Source sequence(s)
    AC051649, BC001785, BQ893821
    Consensus CDS
    CCDS31335.1
    UniProtKB/Swiss-Prot
    P33241
    Conserved Domains (1) summary
    pfam02029
    Location:129252
    Caldesmon; Caldesmon
  4. NM_001242932.1NP_001229861.1  lymphocyte-specific protein 1 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) represents the longest transcript and encodes the longest isoform (3).
    Source sequence(s)
    AC051649, AK092071, BC001785, BE043985, BQ893037
    Consensus CDS
    CCDS58110.1
    UniProtKB/Swiss-Prot
    P33241
    Related
    ENSP00000371194.1, ENST00000381775.5
    Conserved Domains (1) summary
    pfam02029
    Location:319413
    Caldesmon; Caldesmon
  5. NM_001289005.1NP_001275934.1  lymphocyte-specific protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001275934.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) contains a distinct 5' UTR and lacks an in-frame portion of the 5' coding region, compared to variant 5. The resulting isoform (2) has a shorter N-terminus, compared to isoform 3. Variants 2, 3, 4 and 6 encode the same protein (isoform 2).
    Source sequence(s)
    AI817126, AK222733, AK292033
    Consensus CDS
    CCDS31335.1
    UniProtKB/Swiss-Prot
    P33241
    UniProtKB/TrEMBL
    A8K7L8
    Related
    ENSP00000484140.1, ENST00000612798.4
    Conserved Domains (1) summary
    pfam02029
    Location:129252
    Caldesmon; Caldesmon
  6. NM_002339.3NP_002330.1  lymphocyte-specific protein 1 isoform 1

    See identical proteins and their annotated locations for NP_002330.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) contains an alternate exon and lacks two exons in the 5' coding region compared to variant 5. The resulting protein (isoform 1) has a distinct N-terminus and is shorter than isoform 3.
    Source sequence(s)
    AC051649, BC001785
    Consensus CDS
    CCDS31334.1
    UniProtKB/Swiss-Prot
    P33241
    Related
    ENSP00000308383.3, ENST00000311604.7
    Conserved Domains (1) summary
    pfam02029
    Location:191314
    Caldesmon; Caldesmon

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    1853084..1892263
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 PATCHES

Genomic

  1. NW_021160004.1 Reference GRCh38.p13 PATCHES

    Range
    43587..82766
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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