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Aliases for LIMS1 Gene

Aliases for LIMS1 Gene

  • LIM And Senescent Cell Antigen-Like Domains 1 2 3
  • Particularly Interesting New Cys-His Protein 1 3 4
  • Renal Carcinoma Antigen NY-REN-48 3 4
  • PINCH-1 3 4
  • PINCH1 3 4
  • PINCH 3 4
  • LIM And Senescent Cell Antigen-Like-Containing Domain Protein 1 3

External Ids for LIMS1 Gene

Summaries for LIMS1 Gene

Entrez Gene Summary for LIMS1 Gene

  • The protein encoded by this gene is an adaptor protein which contains five LIM domains, or double zinc fingers. The protein is likely involved in integrin signaling through its LIM domain-mediated interaction with integrin-linked kinase, found in focal adhesion plaques. It is also thought to act as a bridge linking integrin-linked kinase to NCK adaptor protein 2, which is involved in growth factor receptor kinase signaling pathways. Its localization to the periphery of spreading cells also suggests that this protein may play a role in integrin-mediated cell adhesion or spreading. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2010]

GeneCards Summary for LIMS1 Gene

LIMS1 (LIM And Senescent Cell Antigen-Like Domains 1) is a Protein Coding gene. Diseases associated with LIMS1 include ebstein anomaly and atrioventricular septal defect. Among its related pathways are ERK Signaling and Cytoskeletal Signaling. An important paralog of this gene is LDB3.

UniProtKB/Swiss-Prot for LIMS1 Gene

  • Adapter protein in a cytoplasmic complex linking beta-integrins to the actin cytoskeleton, bridges the complex to cell surface receptor tyrosine kinases and growth factor receptors. Involved in the regulation of cell survival, cell proliferation and cell differentiation

Gene Wiki entry for LIMS1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LIMS1 Gene

Genomics for LIMS1 Gene

Genomic Location for LIMS1 Gene

Start:
108,534,355 bp from pter
End:
108,687,246 bp from pter
Size:
152,892 bases
Orientation:
Plus strand

Genomic View for LIMS1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for LIMS1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LIMS1 Gene

Regulatory Elements for LIMS1 Gene

Proteins for LIMS1 Gene

  • Protein details for LIMS1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P48059-LIMS1_HUMAN
    Recommended name:
    LIM and senescent cell antigen-like-containing domain protein 1
    Protein Accession:
    P48059
    Secondary Accessions:
    • B2RAJ4
    • B7Z483
    • B7Z7R3
    • B7Z907
    • Q53TE0
    • Q9BS44

    Protein attributes for LIMS1 Gene

    Size:
    325 amino acids
    Molecular mass:
    37251 Da
    Quaternary structure:
    • Interacts (via LIM zinc-binding 5) with TGFB1I1 (By similarity). Interacts with integrin-linked protein kinase 1 (ILK) via the first LIM domain, and in competition with LIMS2. Part of the heterotrimeric IPP complex composed of integrin-linked kinase (ILK), LIMS1 or LIMS2, and PARVA. Interacts with SH3/SH2 adapter NCK2, thereby linking the complex to cell surface receptors.

    Three dimensional structures from OCA and Proteopedia for LIMS1 Gene

    Alternative splice isoforms for LIMS1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LIMS1 Gene

Proteomics data for LIMS1 Gene at MOPED

Post-translational modifications for LIMS1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for LIMS1 Gene

Domains for LIMS1 Gene

Protein Domains for LIMS1 Gene

InterPro:
Blocks:
ProtoNet:

UniProtKB/Swiss-Prot:

LIMS1_HUMAN
Domain:
  • Contains 5 LIM zinc-binding domains.:
    • P48059
genes like me logo Genes that share domains with LIMS1: view

No data available for Gene Families for LIMS1 Gene

Function for LIMS1 Gene

Molecular function for LIMS1 Gene

UniProtKB/Swiss-Prot Function: Adapter protein in a cytoplasmic complex linking beta-integrins to the actin cytoskeleton, bridges the complex to cell surface receptor tyrosine kinases and growth factor receptors. Involved in the regulation of cell survival, cell proliferation and cell differentiation

Gene Ontology (GO) - Molecular Function for LIMS1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 10574708
GO:0008270 zinc ion binding IDA 19074270
GO:0019901 protein kinase binding IPI 20926685
genes like me logo Genes that share ontologies with LIMS1: view
genes like me logo Genes that share phenotypes with LIMS1: view

Animal Models for LIMS1 Gene

MGI Knock Outs for LIMS1:

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for LIMS1 Gene

Localization for LIMS1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LIMS1 Gene

Cell junction, focal adhesion. Cell membrane; Peripheral membrane protein; Cytoplasmic side.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LIMS1 Gene COMPARTMENTS Subcellular localization image for LIMS1 gene
Compartment Confidence
plasma membrane 5
cytosol 4
nucleus 3

Gene Ontology (GO) - Cellular Components for LIMS1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol TAS --
GO:0005886 plasma membrane IEA --
GO:0005911 cell-cell junction IMP 20926685
GO:0005925 colocalizes_with focal adhesion IDA 19117955
GO:0043234 protein complex --
genes like me logo Genes that share ontologies with LIMS1: view

Pathways for LIMS1 Gene

genes like me logo Genes that share pathways with LIMS1: view

Pathways by source for LIMS1 Gene

Gene Ontology (GO) - Biological Process for LIMS1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001837 NOT epithelial to mesenchymal transition IMP 20926685
GO:0007160 cell-matrix adhesion --
GO:0007163 establishment or maintenance of cell polarity --
GO:0007569 cell aging TAS 7517666
GO:0010628 positive regulation of gene expression IMP 20926685
genes like me logo Genes that share ontologies with LIMS1: view

Compounds for LIMS1 Gene

(2) Novoseek inferred chemical compound relationships for LIMS1 Gene

Compound -log(P) Hits PubMed IDs
zinc 25.1 1
serine 22.5 2
genes like me logo Genes that share compounds with LIMS1: view

Transcripts for LIMS1 Gene

Unigene Clusters for LIMS1 Gene

LIM and senescent cell antigen-like domains 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for LIMS1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c · 6d · 6e ^ 7a · 7b ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16 ^ 17
SP1: - - - - -
SP2: - - - - - - - - - - - - - -
SP3: - - - - - - - - - - - - -
SP4: - - - - - - - - - - -
SP5: - - - - - - - - - -
SP6: - - - - - - - - - - - -
SP7: - - - - - -
SP8: -
SP9: - - - -
SP10: - -
SP11: - - - - - - -
SP12:

Relevant External Links for LIMS1 Gene

GeneLoc Exon Structure for
LIMS1
ECgene alternative splicing isoforms for
LIMS1

Expression for LIMS1 Gene

mRNA expression in normal human tissues for LIMS1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for LIMS1 Gene

SOURCE GeneReport for Unigene cluster for LIMS1 Gene Hs.597715

mRNA Expression by UniProt/SwissProt for LIMS1 Gene

P48059-LIMS1_HUMAN
Tissue specificity: Expressed in most tissues except in the brain
genes like me logo Genes that share expressions with LIMS1: view

Orthologs for LIMS1 Gene

This gene was present in the common ancestor of animals.

Orthologs for LIMS1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LIMS1 36
  • 99.41 (n)
  • 100 (a)
cow
(Bos Taurus)
Mammalia LIMS1 36
  • 89.91 (n)
  • 97.63 (a)
MGC142792 37
  • 96 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 37
  • 91 (a)
OneToMany
LIMS1 36
  • 90.01 (n)
  • 96.85 (a)
mouse
(Mus musculus)
Mammalia Lims1 36
  • 90.72 (n)
  • 99.39 (a)
Lims1 16
Lims1 37
  • 91 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 37
  • 88 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 37
  • 82 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Lims1 36
  • 90.72 (n)
  • 99.08 (a)
chicken
(Gallus gallus)
Aves -- 37
  • 69 (a)
ManyToMany
-- 37
  • 79 (a)
ManyToMany
-- 37
  • 86 (a)
ManyToMany
-- 37
  • 84 (a)
ManyToMany
LIMS1 36
  • 82.87 (n)
  • 96.31 (a)
LIMS1 37
  • 97 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 37
  • 92 (a)
OneToMany
African clawed frog
(Xenopus laevis)
Amphibia Xl.12605 36
tropical clawed frog
(Silurana tropicalis)
Amphibia lims1 36
  • 82.87 (n)
  • 96.94 (a)
Str.8448 36
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5292 36
zebrafish
(Danio rerio)
Actinopterygii lims1 36
  • 80.85 (n)
  • 95.24 (a)
lims1 37
  • 94 (a)
ManyToMany
lims2 37
  • 73 (a)
ManyToMany
wufc32c03 36
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP003429 36
  • 64.35 (n)
  • 65.93 (a)
fruit fly
(Drosophila melanogaster)
Insecta stck 36
  • 65.2 (n)
  • 67.92 (a)
stck 37
  • 64 (a)
OneToMany
stck 38
  • 65 (a)
worm
(Caenorhabditis elegans)
Secernentea unc-97 36
  • 63.03 (n)
  • 60.58 (a)
unc-97 37
  • 56 (a)
OneToMany
unc-97 38
  • 61 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4597 36
sea squirt
(Ciona savignyi)
Ascidiacea CSA.11312 37
  • 67 (a)
OneToMany
Species with no ortholog for LIMS1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)

Evolution for LIMS1 Gene

ENSEMBL:
Gene Tree for LIMS1 (if available)
TreeFam:
Gene Tree for LIMS1 (if available)

Paralogs for LIMS1 Gene

Paralogs for LIMS1 Gene

genes like me logo Genes that share paralogs with LIMS1: view

Variants for LIMS1 Gene

Sequence variations from dbSNP and Humsavar for LIMS1 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs700878 -- 108,685,932(+) GCATG(A/G)CCTGA utr-variant-3-prime
rs700879 -- 108,685,231(-) CCCTC(C/G)TTCCA utr-variant-3-prime
rs700880 -- 108,662,515(+) GATCT(A/G)TTGGG intron-variant
rs826588 -- 108,682,162(+) AAATA(C/T)TTTGT intron-variant, downstream-variant-500B
rs826589 -- 108,683,580(+) TAAGT(A/T)AATTA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LIMS1 Gene

Variant ID Type Subtype PubMed ID
esv2720498 CNV Deletion 23290073
dgv1234e1 CNV Complex 17122850
dgv153e55 CNV Gain 17911159
nsv527491 CNV Loss 19592680
nsv834328 CNV Gain 17160897
nsv521122 CNV Loss 19592680

Relevant External Links for LIMS1 Gene

HapMap Linkage Disequilibrium report
LIMS1

Disorders for LIMS1 Gene

(2) University of Copenhagen DISEASES for LIMS1 Gene

(7) Novoseek inferred disease relationships for LIMS1 Gene

Disease -log(P) Hits PubMed IDs
colorectal cancer 25.1 7
carcinoma squamous cell 23.8 6
colorectal carcinoma 19.1 1
metastasis 9.38 7
adenocarcinoma 4.56 1
genes like me logo Genes that share disorders with LIMS1: view

No data available for UniProtKB/Swiss-Prot for LIMS1 Gene

Publications for LIMS1 Gene

  1. Nck-2, a novel Src homology2/3-containing adaptor protein that interacts with the LIM-only protein PINCH and components of growth factor receptor kinase-signaling pathways. (PMID: 9843575) Tu Y. … Wu C. (Mol. Biol. Cell 1998) 3 4 23
  2. Solution structure of the focal adhesion adaptor PINCH LIM1 domain and characterization of its interaction with the integrin-linked kinase ankyrin repeat domain. (PMID: 11078733) Velyvis A. … Qin J. (J. Biol. Chem. 2001) 3 4 23
  3. Structural and functional insights into PINCH LIM4 domain-mediated integrin signaling. (PMID: 12794636) Velyvis A. … Qin J. (Nat. Struct. Biol. 2003) 3 4 23
  4. The structural basis of integrin-linked kinase-PINCH interactions. (PMID: 19074270) Chiswell B.P. … Calderwood D.A. (Proc. Natl. Acad. Sci. U.S.A. 2008) 3 4 23
  5. Structural basis of focal adhesion localization of LIM-only adaptor PINCH by integrin-linked kinase. (PMID: 19117955) Yang Y. … Qin J. (J. Biol. Chem. 2009) 3 4 23

Products for LIMS1 Gene

Sources for LIMS1 Gene

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