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Aliases for PDLIM1 Gene

Aliases for PDLIM1 Gene

  • PDZ And LIM Domain 1 2 3
  • Elfin 2 3 4
  • CLIM1 3 4 6
  • CLP36 3 4 6
  • Carboxyl Terminal LIM Domain Protein 1 2 3
  • LIM Domain Protein CLP-36 3 4
  • Epididymis Secretory Protein Li 112 3
  • C-Terminal LIM Domain Protein 1 4
  • PDZ And LIM Domain 1 (Elfin) 2
  • PDZ And LIM Domain Protein 1 3
  • HEL-S-112 3
  • CLP-36 3
  • HCLIM1 3

External Ids for PDLIM1 Gene

Previous HGNC Symbols for PDLIM1 Gene

  • CLIM1

Previous GeneCards Identifiers for PDLIM1 Gene

  • GC10M095890
  • GC10M096230
  • GC10M097128
  • GC10M096661
  • GC10M096987
  • GC10M096997
  • GC10M090624

Summaries for PDLIM1 Gene

Entrez Gene Summary for PDLIM1 Gene

  • This gene encodes a member of the enigma protein family. The protein contains two protein interacting domains, a PDZ domain at the amino terminal end and one to three LIM domains at the carboxyl terminal. It is a cytoplasmic protein associated with the cytoskeleton. The protein may function as an adapter to bring other LIM-interacting proteins to the cytoskeleton. Pseudogenes associated with this gene are located on chromosomes 3, 14 and 17. [provided by RefSeq, Oct 2012]

GeneCards Summary for PDLIM1 Gene

PDLIM1 (PDZ And LIM Domain 1) is a Protein Coding gene. Diseases associated with PDLIM1 include hyperacusis and dental enamel hypoplasia. GO annotations related to this gene include transcription coactivator activity. An important paralog of this gene is PDLIM4.

UniProtKB/Swiss-Prot for PDLIM1 Gene

  • Cytoskeletal protein that may act as an adapter that brings other proteins (like kinases) to the cytoskeleton

Gene Wiki entry for PDLIM1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PDLIM1 Gene

Genomics for PDLIM1 Gene

Regulatory Elements for PDLIM1 Gene

Genomic Location for PDLIM1 Gene

Start:
95,237,568 bp from pter
End:
95,291,148 bp from pter
Size:
53,581 bases
Orientation:
Minus strand

Genomic View for PDLIM1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PDLIM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PDLIM1 Gene

Proteins for PDLIM1 Gene

  • Protein details for PDLIM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00151-PDLI1_HUMAN
    Recommended name:
    PDZ and LIM domain protein 1
    Protein Accession:
    O00151
    Secondary Accessions:
    • B2RBS6
    • Q5VZH5
    • Q9BPZ9

    Protein attributes for PDLIM1 Gene

    Size:
    329 amino acids
    Molecular mass:
    36072 Da
    Quaternary structure:
    • Interacts with alpha-actinins 1, 2 and 4.

    Three dimensional structures from OCA and Proteopedia for PDLIM1 Gene

neXtProt entry for PDLIM1 Gene

Proteomics data for PDLIM1 Gene at MOPED

Post-translational modifications for PDLIM1 Gene

  • Ubiquitination at Lys22
  • Modification sites at PhosphoSitePlus

Other Protein References for PDLIM1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for PDLIM1 Gene

Domains for PDLIM1 Gene

Protein Domains for PDLIM1 Gene

Suggested Antigen Peptide Sequences for PDLIM1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O00151

UniProtKB/Swiss-Prot:

PDLI1_HUMAN :
  • O00151
Domain:
  • Contains 1 LIM zinc-binding domain.
  • Contains 1 PDZ (DHR) domain.
genes like me logo Genes that share domains with PDLIM1: view

No data available for Gene Families for PDLIM1 Gene

Function for PDLIM1 Gene

Molecular function for PDLIM1 Gene

UniProtKB/Swiss-Prot Function: Cytoskeletal protein that may act as an adapter that brings other proteins (like kinases) to the cytoskeleton

Gene Ontology (GO) - Molecular Function for PDLIM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003713 transcription coactivator activity IEA --
GO:0005515 protein binding --
GO:0008270 zinc ion binding IEA --
genes like me logo Genes that share ontologies with PDLIM1: view
genes like me logo Genes that share phenotypes with PDLIM1: view

Animal Model Products

CRISPR Products

miRNA for PDLIM1 Gene

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PDLIM1

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for PDLIM1 Gene

Localization for PDLIM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PDLIM1 Gene

Cytoplasm. Cytoplasm, cytoskeleton. Note=Associates with the actin stress fibers. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PDLIM1 Gene COMPARTMENTS Subcellular localization image for PDLIM1 gene
Compartment Confidence
cytosol 3
cytoskeleton 2
nucleus 2
mitochondrion 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for PDLIM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005667 transcription factor complex IEA --
GO:0005737 cytoplasm IEA --
GO:0005856 cytoskeleton IEA --
GO:0005925 focal adhesion IDA 21423176
genes like me logo Genes that share ontologies with PDLIM1: view

Pathways for PDLIM1 Gene

SuperPathways for PDLIM1 Gene

No Data Available

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays
    • Oxidative Stress in human,mouse,rat

Gene Ontology (GO) - Biological Process for PDLIM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001666 response to hypoxia IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006979 response to oxidative stress TAS 8522188
genes like me logo Genes that share ontologies with PDLIM1: view

No data available for Pathways by source for PDLIM1 Gene

Compounds for PDLIM1 Gene

(1) Novoseek inferred chemical compound relationships for PDLIM1 Gene

Compound -log(P) Hits PubMed IDs
calcium 5.81 2
genes like me logo Genes that share compounds with PDLIM1: view

Transcripts for PDLIM1 Gene

Unigene Clusters for PDLIM1 Gene

PDZ and LIM domain 1:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PDLIM1

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PDLIM1 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c · 6d ^ 7a · 7b ^ 8 ^ 9a · 9b · 9c · 9d
SP1: - - -
SP2: - - - - -
SP3: - - -
SP4: - -
SP5: - - - - - - - -
SP6: -
SP7: - - - - - -
SP8:

Relevant External Links for PDLIM1 Gene

GeneLoc Exon Structure for
PDLIM1
ECgene alternative splicing isoforms for
PDLIM1

Expression for PDLIM1 Gene

mRNA expression in normal human tissues for PDLIM1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PDLIM1 Gene

This gene is overexpressed in Muscle - Skeletal (5.4).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for PDLIM1 Gene

SOURCE GeneReport for Unigene cluster for PDLIM1 Gene Hs.368525

mRNA Expression by UniProt/SwissProt for PDLIM1 Gene

O00151-PDLI1_HUMAN
Tissue specificity: Strongly expressed in the heart and skeletal muscle, moderately expressed in the spleen, small intestine, colon, placenta, and lung. A lower level expression is seen in liver, thymus, kidney, prostate and pancreas and is not found in the brain, testis, ovary, and peripheral blood leukocytes
genes like me logo Genes that share expressions with PDLIM1: view

In Situ Assay Products

Orthologs for PDLIM1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PDLIM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PDLIM1 35
  • 99.5 (n)
  • 100 (a)
PDLIM1 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PDLIM1 35
  • 91.16 (n)
  • 92.38 (a)
PDLIM1 36
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PDLIM1 35
  • 88.55 (n)
  • 94.28 (a)
PDLIM1 36
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pdlim1 35
  • 87.38 (n)
  • 89.85 (a)
Pdlim1 16
Pdlim1 36
  • 89 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PDLIM1 36
  • 87 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PDLIM1 36
  • 70 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Pdlim1 35
  • 86.44 (n)
  • 88.99 (a)
chicken
(Gallus gallus)
Aves PDLIM1 35
  • 73.5 (n)
  • 78.9 (a)
PDLIM1 36
  • 79 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PDLIM1 36
  • 73 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia MGC76041 35
pdlim1 35
  • 71.08 (n)
  • 72.62 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10330 35
zebrafish
(Danio rerio)
Actinopterygii Dr.23376 35
pdlim1 35
  • 68.03 (n)
  • 74.13 (a)
pdlim1 36
  • 71 (a)
OneToOne
Species with no ortholog for PDLIM1:
  • 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)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for PDLIM1 Gene

ENSEMBL:
Gene Tree for PDLIM1 (if available)
TreeFam:
Gene Tree for PDLIM1 (if available)

Paralogs for PDLIM1 Gene

Paralogs for PDLIM1 Gene

Selected SIMAP similar genes for PDLIM1 Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for PDLIM1 Gene

genes like me logo Genes that share paralogs with PDLIM1: view

Variants for PDLIM1 Gene

Sequence variations from dbSNP and Humsavar for PDLIM1 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type MAF
rs4235 -- 95,237,678(+) AACGG(A/C/G/T)GGGGC utr-variant-3-prime
rs7989 -- 95,237,639(-) AATTT(G/T)AACCC utr-variant-3-prime
rs10048 -- 95,237,747(-) GCCCG(C/T)TTTTA utr-variant-3-prime
rs11872 -- 95,237,852(-) CTCTC(C/G/T)TCTCT utr-variant-3-prime
rs567229 -- 95,241,506(+) AGGGG(A/G)TGCCA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PDLIM1 Gene

Variant ID Type Subtype PubMed ID
esv22688 CNV Gain+Loss 19812545

Relevant External Links for PDLIM1 Gene

HapMap Linkage Disequilibrium report
PDLIM1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PDLIM1 Gene

Disorders for PDLIM1 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (3) Diseases for PDLIM1 Gene including...

Search for PDLIM1 Gene in MalaCards »

(10) Novoseek inferred disease relationships for PDLIM1 Gene

Disease -log(P) Hits PubMed IDs
aortic stenosis supravalvular 93.4 10
williams syndrome 93.3 19
hypercalcemia 68.7 9
mental retardation 65.9 12
developmental delay 55.1 2

Relevant External Links for PDLIM1

Genetic Association Database (GAD)
PDLIM1
Human Genome Epidemiology (HuGE) Navigator
PDLIM1
genes like me logo Genes that share disorders with PDLIM1: view

No data available for UniProtKB/Swiss-Prot for PDLIM1 Gene

Publications for PDLIM1 Gene

  1. Interaction of hCLIM1, an enigma family protein, with alpha-actinin 2. (PMID: 10861853) Kotaka M. … Waye M.M.Y. (J. Cell. Biochem. 2000) 2 3 4 23
  2. Characterization of the human 36-kDa carboxyl terminal LIM domain protein (hCLIM1). (PMID: 10022510) Kotaka M. … Waye M.M.Y. (J. Cell. Biochem. 1999) 3 4 23
  3. CLP-36 PDZ-LIM protein associates with nonmuscle alpha-actinin-1 and alpha-actinin-4. (PMID: 10753915) Vallenius T. … Makela T.P. (J. Biol. Chem. 2000) 3 4 23
  4. Human CLP-36, a PDZ-domain and LIM-domain protein, binds to alpha- actinin-1 and associates with actin filaments and stress fibers in activated platelets and endothelial cells. (PMID: 11110697) Bauer K. … Siess W. (Blood 2000) 3 4 23
  5. Expression of the actin stress fiber-associated protein CLP36 in the human placenta. (PMID: 16609848) Miehe U. … Huppertz B. (Histochem. Cell Biol. 2006) 3 23

Products for PDLIM1 Gene

Sources for PDLIM1 Gene

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