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LCP1 (lymphocyte cytosolic protein1)

Written1998-03Sylvie Galiègue-Zouitina
U.124 INSERM, I.R.C.L., Place de Verdun, 59045 LILLE Cedex, France

(Note : for Links provided by Atlas : click)

Identity

Alias (NCBI)L-Plastine
HGNC (Hugo) LCP1
HGNC Alias symbPLS2
CP64
L-PLASTIN
LC64P
HGNC Alias nameplastin 2
HGNC Previous namelymphocyte cytosolic protein 1 (L-plastin)
LocusID (NCBI) 3936
Atlas_Id 95
Location 13q14.13  [Link to chromosome band 13q14]
Location_base_pair Starts at 46125923 and ends at 46182177 bp from pter ( according to GRCh38/hg38-Dec_2013)  [Mapping LCP1.png]
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
AP3D1 (19p13.3)::LCP1 (13q14.13)BCL6 (3q27.3)::LCP1 (13q14.13)GNB1 (1p36.33)::LCP1 (13q14.13)
LCP1 (13q14.13)::BCL6 (3q27.3)LCP1 (13q14.13)::LCP1 (13q14.13)LCP1 (13q14.13)::SLC43A1 (11q12.1)
LCP1 (13q14.13)::SLC4A10 (2q24.2)SH3KBP1 (Xp22.12)::LCP1 (13q14.13)

DNA/RNA

Description spans on a 90 kb genomic fragment; 16 exons, large first intron (20kb)
Transcription 3.7 kb mRNA; coding sequence from exon 2 to exon 16: 3500 bp

Protein

Description 570 amino acids
Expression restricted to the hematopoietic cells (leukocytes); expression induced in all tumor cells of all tissues
Localisation membrane
Homology belongs to an actin-binding protein family (T-Plastin, Fimbrin, I-Plastin)

Implicated in

Note
  
Entity / NHL --> LCP1 - BCL6
Disease non Hodgkin follicular as well as Burkitt lymphomas
Cytogenetics t(3;13) is observed as a secondary anomaly
Hybrid/Mutated Gene both 5' L-Plastin- 3' BCL6 and 5' BCL6 - 3' L-Plastin, leading to two fusion transcripts
Abnormal Protein no fusion protein, but promoter exchange between both partner genes
  

Bibliography

Cytogenetics in multiple myeloma: a multicenter study of 24 patients with t(11;14)(q13;q32) or its variant.
Laï JL, Michaux L, Dastugue N, Vasseur F, Daudignon A, Facon T, Bauters F, Zandecki M
Cancer genetics and cytogenetics. 1998 ; 104 (2) : 133-138.
PMID 9666807
 
Molecular cloning and characterization of plastin, a human leukocyte protein expressed in transformed human fibroblasts.
Lin CS, Aebersold RH, Kent SB, Varma M, Leavitt J
Molecular and cellular biology. 1988 ; 8 (11) : 4659-4668.
PMID 3211125
 
Human plastin genes. Comparative gene structure, chromosome location, and differential expression in normal and neoplastic cells.
Lin CS, Park T, Chen ZP, Leavitt J
The Journal of biological chemistry. 1993 ; 268 (4) : 2781-2792.
PMID 8428952
 
Activation of the leukocyte plastin gene occurs in most human cancer cells.
Park T, Chen ZP, Leavitt J
Cancer research. 1994 ; 54 (7) : 1775-1781.
PMID 8137292
 
Interaction of a Dictyostelium member of the plastin/fimbrin family with actin filaments and actin-myosin complexes.
Prassler J, Stocker S, Marriott G, Heidecker M, Kellermann J, Gerisch G
Molecular biology of the cell. 1997 ; 8 (1) : 83-95.
PMID 9017597
 

Citation

This paper should be referenced as such :
Galiögue-Zouitina, S
LCP1 (lymphocyte cytosolic protein1)
Atlas Genet Cytogenet Oncol Haematol. 1998;2(2):36-36.
Free journal version : [ pdf ]   [ DOI ]


Other Leukemias implicated (Data extracted from papers in the Atlas) [ 3 ]
  3q27 rearrangements (BCL6) in non Hodgkin lymphoma::t(3;Var)(q27;Var) in non Hodgkin lymphoma
t(3;13)(q27;q14) LCP1::BCL6
t(3;14)(q27;q32) IGH::BCL6::t(2;3)(p12;q27) IGK::BCL6::t(3;22)(q27;q11) IGL::BCL6


External links

 

Nomenclature
HGNC (Hugo)LCP1   6528
Cards
AtlasLCP1ID95
Entrez_Gene (NCBI)LCP1    lymphocyte cytosolic protein 1
AliasesCP64; HEL-S-37; L-PLASTIN; LC64P; 
LPL; PLS2
GeneCards (Weizmann)LCP1
Ensembl hg19 (Hinxton)ENSG00000136167 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000136167 [Gene_View]  ENSG00000136167 [Sequence]  chr13:46125923-46182177 [Contig_View]  LCP1 [Vega]
ICGC DataPortalENSG00000136167
TCGA cBioPortalLCP1
AceView (NCBI)LCP1
Genatlas (Paris)LCP1
SOURCE (Princeton)LCP1
Genetics Home Reference (NIH)LCP1
Genomic and cartography
GoldenPath hg38 (UCSC)LCP1  -     chr13:46125923-46182177 -  13q14.13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LCP1  -     13q14.13   [Description]    (hg19-Feb_2009)
GoldenPathLCP1 - 13q14.13 [CytoView hg19]  LCP1 - 13q14.13 [CytoView hg38]
ImmunoBaseENSG00000136167
Genome Data Viewer NCBILCP1 [Mapview hg19]  
OMIM153430   
Gene and transcription
Genbank (Entrez)AB208984 AK058152 AK093568 AK097174 AK097275
RefSeq transcript (Entrez)NM_002298
Consensus coding sequences : CCDS (NCBI)LCP1
Gene ExpressionLCP1 [ NCBI-GEO ]   LCP1 [ EBI - ARRAY_EXPRESS ]   LCP1 [ SEEK ]   LCP1 [ MEM ]
Gene Expression Viewer (FireBrowse)LCP1 [ Firebrowse - Broad ]
GenevisibleExpression of LCP1 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3936
GTEX Portal (Tissue expression)LCP1
Human Protein AtlasENSG00000136167-LCP1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP13796   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP13796  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP13796
PhosPhoSitePlusP13796
Domaine pattern : Prosite (Expaxy)ACTININ_1 (PS00019)    ACTININ_2 (PS00020)    CH (PS50021)    EF_HAND_1 (PS00018)    EF_HAND_2 (PS50222)   
Domains : Interpro (EBI)Actinin_actin-bd_CS    CH-domain    CH_dom_sf    EF-hand-dom_pair    EF_Hand_1_Ca_BS    EF_hand_dom    Fimbrin/Plastin    PLS2/3   
Domain families : Pfam (Sanger)CH (PF00307)    EF-hand_7 (PF13499)   
Domain families : Pfam (NCBI)pfam00307    pfam13499   
Domain families : Smart (EMBL)CH (SM00033)  EFh (SM00054)  
Conserved Domain (NCBI)LCP1
PDB (RSDB)2D85    5JOJ    5JOL   
PDB Europe2D85    5JOJ    5JOL   
PDB (PDBSum)2D85    5JOJ    5JOL   
PDB (IMB)2D85    5JOJ    5JOL   
Structural Biology KnowledgeBase2D85    5JOJ    5JOL   
SCOP (Structural Classification of Proteins)2D85    5JOJ    5JOL   
CATH (Classification of proteins structures)2D85    5JOJ    5JOL   
SuperfamilyP13796
AlphaFold pdb e-kbP13796   
Human Protein Atlas [tissue]ENSG00000136167-LCP1 [tissue]
HPRD01082
Protein Interaction databases
DIP (DOE-UCLA)P13796
IntAct (EBI)P13796
BioGRIDLCP1
STRING (EMBL)LCP1
ZODIACLCP1
Ontologies - Pathways
QuickGOP13796
Ontology : AmiGOstress fiber  ruffle  ruffle  phagocytic cup  podosome  T cell activation involved in immune response  actin binding  integrin binding  calcium ion binding  extracellular space  cytoplasm  cytoplasm  cytoplasm  cytosol  actin filament  actin filament  actin filament  plasma membrane  focal adhesion  protein kinase A signaling  actin cytoskeleton  cell migration  extracellular matrix disassembly  cell junction  filopodium  cortical actin cytoskeleton organization  animal organ regeneration  actin filament bundle  actin filament bundle  ruffle membrane  regulation of intracellular protein transport  interleukin-12-mediated signaling pathway  wound healing, spreading of cells  perinuclear region of cytoplasm  actin filament binding  actin filament binding  actin filament binding  actin filament bundle assembly  actin filament bundle assembly  actin filament bundle assembly  GTPase binding  actin filament network formation  actin crosslink formation  extracellular exosome  positive regulation of podosome assembly  
Ontology : EGO-EBIstress fiber  ruffle  ruffle  phagocytic cup  podosome  T cell activation involved in immune response  actin binding  integrin binding  calcium ion binding  extracellular space  cytoplasm  cytoplasm  cytoplasm  cytosol  actin filament  actin filament  actin filament  plasma membrane  focal adhesion  protein kinase A signaling  actin cytoskeleton  cell migration  extracellular matrix disassembly  cell junction  filopodium  cortical actin cytoskeleton organization  animal organ regeneration  actin filament bundle  actin filament bundle  ruffle membrane  regulation of intracellular protein transport  interleukin-12-mediated signaling pathway  wound healing, spreading of cells  perinuclear region of cytoplasm  actin filament binding  actin filament binding  actin filament binding  actin filament bundle assembly  actin filament bundle assembly  actin filament bundle assembly  GTPase binding  actin filament network formation  actin crosslink formation  extracellular exosome  positive regulation of podosome assembly  
REACTOMEP13796 [protein]
REACTOME PathwaysR-HSA-8950505 [pathway]   
NDEx NetworkLCP1
Atlas of Cancer Signalling NetworkLCP1
Wikipedia pathwaysLCP1
Orthology - Evolution
OrthoDB3936
GeneTree (enSembl)ENSG00000136167
Phylogenetic Trees/Animal Genes : TreeFamLCP1
Homologs : HomoloGeneLCP1
Homology/Alignments : Family Browser (UCSC)LCP1
Gene fusions - Rearrangements
Fusion : MitelmanBCL6::LCP1 [3q27.3/13q14.13]  
Fusion : MitelmanLCP1::BCL6 [13q14.13/3q27.3]  
Fusion : QuiverLCP1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLCP1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LCP1
dbVarLCP1
ClinVarLCP1
MonarchLCP1
1000_GenomesLCP1 
Exome Variant ServerLCP1
GNOMAD BrowserENSG00000136167
Varsome BrowserLCP1
ACMGLCP1 variants
VarityP13796
Genomic Variants (DGV)LCP1 [DGVbeta]
DECIPHERLCP1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLCP1 
Mutations
ICGC Data PortalLCP1 
TCGA Data PortalLCP1 
Broad Tumor PortalLCP1
OASIS PortalLCP1 [ Somatic mutations - Copy number]
Cancer Gene: CensusLCP1 
Somatic Mutations in Cancer : COSMICLCP1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DLCP1
Mutations and Diseases : HGMDLCP1
intOGen PortalLCP1
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaLCP1
DgiDB (Drug Gene Interaction Database)LCP1
DoCM (Curated mutations)LCP1
CIViC (Clinical Interpretations of Variants in Cancer)LCP1
OncoKBLCP1
NCG (London)LCP1
Cancer3DLCP1
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM153430   
Orphanet
DisGeNETLCP1
MedgenLCP1
Genetic Testing Registry LCP1
NextProtP13796 [Medical]
GENETestsLCP1
Target ValidationLCP1
Huge Navigator LCP1 [HugePedia]
ClinGenLCP1
Clinical trials, drugs, therapy
MyCancerGenomeLCP1
Protein Interactions : CTDLCP1
Pharm GKB GenePA30312
PharosP13796
Clinical trialLCP1
Miscellaneous
canSAR (ICR)LCP1
HarmonizomeLCP1
DataMed IndexLCP1
Probes
Litterature
PubMed100 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXLCP1
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Oct 8 21:21:10 CEST 2021

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