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Aliases for PDLIM2 Gene

Aliases for PDLIM2 Gene

  • PDZ And LIM Domain 2 2 3 5
  • PDZ And LIM Domain Protein 2 3
  • PDZ-LIM Protein Mystique 4
  • MYSTIQUE 3
  • Mystique 2
  • SLIM 3

External Ids for PDLIM2 Gene

Previous GeneCards Identifiers for PDLIM2 Gene

  • GC00U990854
  • GC08P022788
  • GC08P022256
  • GC08P022458
  • GC08P022492
  • GC08P022435
  • GC08P020978

Summaries for PDLIM2 Gene

Entrez Gene Summary for PDLIM2 Gene

  • This gene encodes a member of the ALP subfamily of PDZ-LIM domain proteins. The encoded protein suppresses anchorage-dependent growth and promotes cell migration and adhesion through interactions with the actin cytoskeleton via the PDZ domain. The encoded protein is also a putative tumor suppressor protein, and decreased expression of this gene is associated with several malignancies including breast cancer and adult T-cell leukemia. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Oct 2011]

GeneCards Summary for PDLIM2 Gene

PDLIM2 (PDZ And LIM Domain 2) is a Protein Coding gene. Diseases associated with PDLIM2 include Cogan-Reese Syndrome and T-Cell Leukemia. Among its related pathways are Cytoskeletal Signaling and Immune response_IL-12 signaling pathway. Gene Ontology (GO) annotations related to this gene include alpha-actinin binding and filamin binding. An important paralog of this gene is PDLIM1.

UniProtKB/Swiss-Prot for PDLIM2 Gene

  • Probable adapter protein located at the actin cytoskeleton that promotes cell attachment. Necessary for the migratory capacity of epithelial cells. Overexpression enhances cell adhesion to collagen and fibronectin and suppresses anchorage independent growth. May contribute to tumor cell migratory capacity.

Gene Wiki entry for PDLIM2 Gene

Additional gene information for PDLIM2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PDLIM2 Gene

Genomics for PDLIM2 Gene

GeneHancer (GH) Regulatory Elements for PDLIM2 Gene

Promoters and enhancers for PDLIM2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH08J022578 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 658.2 +6.4 6430 13.1 FOXA2 MLX ARID4B SIN3A DMAP1 ZNF2 IRF4 YY1 ZNF143 FOS PDLIM2 C8orf58 ENSG00000253200 CCAR2 FAM160B2 ENTPD4 ENSG00000245025 BIN3 FGF17 ENSG00000248235
GH08J022593 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 650.4 +19.7 19673 8.5 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF207 ZNF143 FOS C8orf58 PDLIM2 ENSG00000248235
GH08J022545 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.4 -28.1 -28096 10 PKNOX1 FOXA2 ZFP64 ARID4B SIN3A DMAP1 IRF4 YY1 GLIS2 FOS SORBS3 GC08M022549 PPP3CC RNU6-336P PDLIM2 ENSG00000248235 CCAR2 ENSG00000253200 XPO7 SLC39A14
GH08J022439 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.4 -133.6 -133614 10.2 HDGF PKNOX1 SMAD1 MLX ARNT ARID4B SIN3A ZNF2 IRF4 YY1 PPP3CC CCAR2 ENSG00000253200 C8orf58 ENSG00000251034 XPO7 SORBS3 FAM160B2 POLR3D BIN3
GH08J022363 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10 -210.6 -210637 8.3 HDGF PKNOX1 FOXA2 MLX ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 SLC39A14 PIWIL2 PPP3CC CCAR2 PDLIM2 ENSG00000248235 XPO7 RNU6-336P ENSG00000253616 BTF3P3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PDLIM2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PDLIM2 gene promoter:
  • E47
  • HNF-4alpha2
  • Zic3
  • HNF-4alpha1
  • USF-1
  • SEF-1 (1)

Genomic Locations for PDLIM2 Gene

Genomic Locations for PDLIM2 Gene
chr8:22,578,279-22,598,025
(GRCh38/hg38)
Size:
19,747 bases
Orientation:
Plus strand
chr8:22,435,792-22,455,538
(GRCh37/hg19)
Size:
19,747 bases
Orientation:
Plus strand

Genomic View for PDLIM2 Gene

Genes around PDLIM2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PDLIM2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PDLIM2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PDLIM2 Gene

Proteins for PDLIM2 Gene

  • Protein details for PDLIM2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96JY6-PDLI2_HUMAN
    Recommended name:
    PDZ and LIM domain protein 2
    Protein Accession:
    Q96JY6
    Secondary Accessions:
    • D3DSR5
    • J3KNH4
    • Q7Z584
    • Q86WM8
    • Q8WZ29
    • Q9H4L9
    • Q9H7I2

    Protein attributes for PDLIM2 Gene

    Size:
    352 amino acids
    Molecular mass:
    37459 Da
    Quaternary structure:
    • Interacts with alpha-actinins ACTN1 and ACTN4, FLNA and MYH9.
    SequenceCaution:
    • Sequence=AAG16633.1; Type=Frameshift; Positions=131; Evidence={ECO:0000305}; Sequence=AAL55747.1; Type=Frameshift; Positions=42, 207; Evidence={ECO:0000305}; Sequence=AAL65265.1; Type=Frameshift; Positions=237; Evidence={ECO:0000305}; Sequence=BAB15788.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PDLIM2 Gene

    Alternative splice isoforms for PDLIM2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PDLIM2 Gene

Post-translational modifications for PDLIM2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for PDLIM2 Gene

Domains & Families for PDLIM2 Gene

Gene Families for PDLIM2 Gene

Protein Domains for PDLIM2 Gene

Suggested Antigen Peptide Sequences for PDLIM2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with PDLIM2: view

No data available for UniProtKB/Swiss-Prot for PDLIM2 Gene

Function for PDLIM2 Gene

Molecular function for PDLIM2 Gene

UniProtKB/Swiss-Prot Function:
Probable adapter protein located at the actin cytoskeleton that promotes cell attachment. Necessary for the migratory capacity of epithelial cells. Overexpression enhances cell adhesion to collagen and fibronectin and suppresses anchorage independent growth. May contribute to tumor cell migratory capacity.

Phenotypes From GWAS Catalog for PDLIM2 Gene

Gene Ontology (GO) - Molecular Function for PDLIM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21044950
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with PDLIM2: view
genes like me logo Genes that share phenotypes with PDLIM2: view

Animal Models for PDLIM2 Gene

MGI Knock Outs for PDLIM2:

Animal Model Products

miRNA for PDLIM2 Gene

miRTarBase miRNAs that target PDLIM2

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PDLIM2 Gene

Localization for PDLIM2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PDLIM2 Gene

Cytoplasm. Nucleus. Note=May be partially nuclear.
Isoform 1: Cytoplasm, cytoskeleton. Note=Colocalizes with beta-1 integrin (ITGB1) and alpha-actinin but not with paxillin (PXN).
Isoform 2: Cytoplasm, cytoskeleton.
Isoform 3: Nucleus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PDLIM2 gene
Compartment Confidence
extracellular 5
cytoskeleton 5
nucleus 5

Subcellular locations from the

Human Protein Atlas (HPA)
  • Actin filaments (2)
  • Focal adhesion sites (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PDLIM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005856 cytoskeleton IEA --
GO:0070062 extracellular exosome HDA --
genes like me logo Genes that share ontologies with PDLIM2: view

Pathways & Interactions for PDLIM2 Gene

genes like me logo Genes that share pathways with PDLIM2: view

Pathways by source for PDLIM2 Gene

1 GeneGo (Thomson Reuters) pathway for PDLIM2 Gene
2 Cell Signaling Technology pathways for PDLIM2 Gene

Gene Ontology (GO) - Biological Process for PDLIM2 Gene

None

No data available for SIGNOR curated interactions for PDLIM2 Gene

Drugs & Compounds for PDLIM2 Gene

No Compound Related Data Available

Transcripts for PDLIM2 Gene

mRNA/cDNA for PDLIM2 Gene

Unigene Clusters for PDLIM2 Gene

PDZ and LIM domain 2 (mystique):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PDLIM2 Gene

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

Relevant External Links for PDLIM2 Gene

GeneLoc Exon Structure for
PDLIM2
ECgene alternative splicing isoforms for
PDLIM2

Expression for PDLIM2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PDLIM2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PDLIM2 Gene

This gene is overexpressed in Spleen (x8.3) and Whole Blood (x4.2).

Protein differential expression in normal tissues from HIPED for PDLIM2 Gene

This gene is overexpressed in Bone marrow stromal cell (34.2) and Peripheral blood mononuclear cells (9.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for PDLIM2 Gene



Protein tissue co-expression partners for PDLIM2 Gene

NURSA nuclear receptor signaling pathways regulating expression of PDLIM2 Gene:

PDLIM2

SOURCE GeneReport for Unigene cluster for PDLIM2 Gene:

Hs.632034

Evidence on tissue expression from TISSUES for PDLIM2 Gene

  • Nervous system(4.3)
  • Liver(4.2)
  • Spleen(4.2)
genes like me logo Genes that share expression patterns with PDLIM2: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PDLIM2 Gene

Orthologs for PDLIM2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PDLIM2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PDLIM2 34 33
  • 99.45 (n)
OneToOne
dog
(Canis familiaris)
Mammalia PDLIM2 34
  • 83 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PDLIM2 34 33
  • 82.75 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Pdlim2 16 34 33
  • 79.15 (n)
rat
(Rattus norvegicus)
Mammalia Pdlim2 33
  • 78.48 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PDLIM2 34
  • 66 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PDLIM2 34
  • 57 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PDLIM2 34
  • 52 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii pdlim2 34 33
  • 50.74 (n)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3932 34
  • 24 (a)
OneToOne
Species where no ortholog for PDLIM2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PDLIM2 Gene

ENSEMBL:
Gene Tree for PDLIM2 (if available)
TreeFam:
Gene Tree for PDLIM2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PDLIM2: view image

Paralogs for PDLIM2 Gene

Paralogs for PDLIM2 Gene

(6) SIMAP similar genes for PDLIM2 Gene using alignment to 8 proteins:

  • PDLI2_HUMAN
  • C9J0X3_HUMAN
  • C9J760_HUMAN
  • C9JS55_HUMAN
  • C9JSR2_HUMAN
  • C9K0F0_HUMAN
  • F8WFB8_HUMAN
  • Q8TET9_HUMAN

Pseudogenes.org Pseudogenes for PDLIM2 Gene

genes like me logo Genes that share paralogs with PDLIM2: view

Variants for PDLIM2 Gene

Sequence variations from dbSNP and Humsavar for PDLIM2 Gene

SNP ID Clin Chr 08 pos Variation AA Info Type
rs1000049085 -- 22,586,688(+) C/T intron_variant
rs1000238811 -- 22,594,771(+) T/C 3_prime_UTR_variant, downstream_transcript_variant, genic_downstream_transcript_variant
rs1000292520 -- 22,591,196(+) T/G intron_variant
rs1000352024 -- 22,596,576(+) A/G 3_prime_UTR_variant, genic_downstream_transcript_variant
rs1000411599 -- 22,589,448(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PDLIM2 Gene

Variant ID Type Subtype PubMed ID
esv2736748 CNV deletion 23290073
esv2759604 CNV loss 17122850
esv3543216 CNV deletion 23714750
nsv1124328 CNV deletion 24896259
nsv951113 CNV deletion 24416366

Variation tolerance for PDLIM2 Gene

Gene Damage Index Score: 5.83; 73.85% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PDLIM2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PDLIM2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PDLIM2 Gene

Disorders for PDLIM2 Gene

MalaCards: The human disease database

(2) MalaCards diseases for PDLIM2 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
cogan-reese syndrome
t-cell leukemia
  • leukemia t-cell
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for PDLIM2

genes like me logo Genes that share disorders with PDLIM2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PDLIM2 Gene

Publications for PDLIM2 Gene

  1. Mystique is a new insulin-like growth factor-I-regulated PDZ-LIM domain protein that promotes cell attachment and migration and suppresses Anchorage-independent growth. (PMID: 15659642) Loughran G … O'Connor R (Molecular biology of the cell 2005) 3 4 22 58
  2. Epigenetic repression of PDZ-LIM domain-containing protein 2: implications for the biology and treatment of breast cancer. (PMID: 20185823) Qu Z … Xiao G (The Journal of biological chemistry 2010) 3 22 58
  3. Human T-cell leukemia virus type I-mediated repression of PDZ-LIM domain-containing protein 2 involves DNA methylation but independent of the viral oncoprotein tax. (PMID: 19794962) Yan P … Xiao G (Neoplasia (New York, N.Y.) 2009) 3 22 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for PDLIM2 Gene

Sources for PDLIM2 Gene

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