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Pdlim3 PDZ and LIM domain 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 114108, updated on 30-Mar-2024

Summary

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Official Symbol
Pdlim3provided by RGD
Official Full Name
PDZ and LIM domain 3provided by RGD
Primary source
RGD:620427
See related
Ensembl:ENSRNOG00000012658 AllianceGenome:RGD:620427
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Alp; Actn2lp
Summary
Enables actinin binding activity. Predicted to be involved in actin cytoskeleton organization; heart development; and muscle structure development. Predicted to act upstream of or within actin filament organization. Located in Z disc. Orthologous to human PDLIM3 (PDZ and LIM domain 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Muscle (RPKM 2943.2), Heart (RPKM 471.9) and 2 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Pdlim3 in Genome Data Viewer
Location:
16q11
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (53085020..53116495, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (46352460..46383680, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (49543140..49574362, complement)

Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene UFM1-specific peptidase 2 Neighboring gene cilia and flagella associated protein 96 Neighboring gene coiled-coil domain containing 110 Neighboring gene U6atac minor spliceosomal RNA Neighboring gene Glyceraldehyde-3-phosphate dehydrogenase, pseudogene 100

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Actinin-associated LIM protein-deficient mice maintain normal development and structure of skeletal muscle. Jo K, et al. Mol Cell Biol, 2001 Mar. PMID 11238905, Free PMC Article
  2. Actinin-associated LIM protein: identification of a domain interaction between PDZ and spectrin-like repeat motifs. Xia H, et al. J Cell Biol, 1997 Oct 20. PMID 9334352, Free PMC Article
  3. Adult mice deficient in actinin-associated LIM-domain protein reveal a developmental pathway for right ventricular cardiomyopathy. Pashmforoush M, et al. Nat Med, 2001 May. PMID 11329061
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables actin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables actinin binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables cytoskeletal protein binding ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables muscle alpha-actinin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables structural constituent of muscle ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in actin cytoskeleton organization IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within actin filament organization ISO
Inferred from Sequence Orthology
more info
  
involved_in biological_process ND
No biological Data available
more info
  
involved_in heart development IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within heart development ISO
Inferred from Sequence Orthology
more info
  
involved_in muscle structure development IBA
Inferred from Biological aspect of Ancestor
more info
  
NOT acts_upstream_of_or_within skeletal muscle tissue development ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in Z disc IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in Z disc IDA
Inferred from Direct Assay
more info
 PubMed 
located_in Z disc IEA
Inferred from Electronic Annotation
more info
  
located_in actin cytoskeleton ISO
Inferred from Sequence Orthology
more info
  
is_active_in adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
part_of filamentous actin IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in stress fiber IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
PDZ and LIM domain protein 3
Names
SK-2
actinin alpha 2 associated LIM protein
actinin-associated LIM protein
alpha-actinin-2-associated LIM protein

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

  1. NM_053650.2 → NP_446102.2  PDZ and LIM domain protein 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000016
    UniProtKB/Swiss-Prot
    O70208, Q66HS7
    UniProtKB/TrEMBL
    A6JPQ7, D3ZFR7
    Related
    ENSRNOP00000017054.2, ENSRNOT00000017054.7
    Conserved Domains (3) summary
    cd09450
    Location:294 → 346
    LIM_ALP; This family represents the LIM domain of ALP, actinin-associated LIM protein
    cd00992
    Location:2 → 80
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    pfam15936
    Location:184 → 263
    DUF4749; Domain of unknown function (DUF4749)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086034.1 Reference GRCr8

    Range
    53085020..53116495 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006253119.5 → XP_006253181.1  PDZ and LIM domain protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006253181.1

    UniProtKB/TrEMBL
    A0A0G2JSM3, A6JPQ8
    Related
    ENSRNOP00000017568.4
    Conserved Domains (3) summary
    cd09450
    Location:246 → 298
    LIM_ALP; This family represents the LIM domain of ALP, actinin-associated LIM protein
    cd00992
    Location:2 → 80
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    pfam15936
    Location:137 → 217
    DUF4749; Domain of unknown function (DUF4749)

  2. XM_006253120.5 → XP_006253182.1  PDZ and LIM domain protein 3 isoform X2

    UniProtKB/TrEMBL
    A0A0G2K9W2
    Related
    ENSRNOP00000075153.2
    Conserved Domains (3) summary
    cd09450
    Location:206 → 258
    LIM_ALP; This family represents the LIM domain of ALP, actinin-associated LIM protein
    cd00992
    Location:2 → 80
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    pfam15936
    Location:139 → 177
    DUF4749; Domain of unknown function (DUF4749)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q66HS7.2 GenPept UniProtKB/Swiss-Prot:Q66HS7

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