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    Pdlim2 PDZ and LIM domain 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 290354, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Pdlim2provided by RGD
    Official Full Name
    PDZ and LIM domain 2provided by RGD
    Primary source
    RGD:1359203
    See related
    EnsemblRapid:ENSRNOG00000008543 AllianceGenome:RGD:1359203
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Enables filamin binding activity; muscle alpha-actinin binding activity; and myosin heavy chain binding activity. Predicted to be involved in several processes, including actin cytoskeleton organization; heart development; and protein catabolic process. Located in cortical actin cytoskeleton and stress fiber. Orthologous to human PDLIM2 (PDZ and LIM domain 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 114.5), Adrenal (RPKM 75.0) and 7 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Pdlim2 in Genome Data Viewer
    Location:
    15p11
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (51647195..51659904, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (45235421..45250187, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (51843562..51856785, complement)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene cell cycle and apoptosis regulator 2 Neighboring gene similar to human chromosome 8 open reading frame 58 Neighboring gene uncharacterized LOC134482142 Neighboring gene sorbin and SH3 domain containing 3 Neighboring gene protein phosphatase 3 catalytic subunit gamma Neighboring gene mitochondrial pyruvate carrier 1-like

    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. Pdlim2, a novel PDZ-LIM domain protein, interacts with alpha-actinins and filamin A. Torrado M, et al. Invest Ophthalmol Vis Sci, 2004 Nov. PMID 15505042
    2. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485
    3. 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
    4. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    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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    Homology

    Clone Names

    • MGC94060

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables alpha-actinin binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables filamin binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    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 muscle alpha-actinin binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables myosin heavy chain binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ubiquitin protein ligase binding 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
    		  
    involved_in heart development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in muscle structure development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein catabolic process 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
    		  
    is_active_in adherens junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cortical actin cytoskeleton IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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
    		  
    located_in stress fiber IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    PDZ and LIM domain protein 2
    Names
    alpha-actinins and filamin-interacting 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_001007622.1 → NP_001007623.1  PDZ and LIM domain protein 2

      See identical proteins and their annotated locations for NP_001007623.1

      Status: PROVISIONAL

      Source sequence(s)
      BC079091
      UniProtKB/Swiss-Prot
      Q6AYD6
      UniProtKB/TrEMBL
      A6HTJ1, A6HTJ3
      Related
      ENSRNOP00000011663.3, ENSRNOT00000011663.6
      Conserved Domains (3) summary
      cd09449
      Location:283 → 335
      LIM_Mystique; The LIM domain of Mystique, a subfamily of ALP LIM domain proteins
      cd00992
      Location:9 → 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:190 → 252
      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_086033.1 Reference GRCr8

      Range
      51647195..51659904 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006252257.5 → XP_006252319.1  PDZ and LIM domain protein 2 isoform X2

      See identical proteins and their annotated locations for XP_006252319.1

      UniProtKB/Swiss-Prot
      Q6AYD6
      UniProtKB/TrEMBL
      A6HTJ1, A6HTJ3
      Conserved Domains (3) summary
      cd09449
      Location:283 → 335
      LIM_Mystique; The LIM domain of Mystique, a subfamily of ALP LIM domain proteins
      cd00992
      Location:9 → 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:190 → 252
      DUF4749; Domain of unknown function (DUF4749)

    2. XM_039093158.2 → XP_038949086.1  PDZ and LIM domain protein 2 isoform X3

      UniProtKB/TrEMBL
      A6HTJ1
      Conserved Domains (3) summary
      cd09449
      Location:282 → 334
      LIM_Mystique; The LIM domain of Mystique, a subfamily of ALP LIM domain proteins
      cd00992
      Location:9 → 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:190 → 251
      DUF4749; Domain of unknown function (DUF4749)

    3. XM_063274139.1 → XP_063130209.1  PDZ and LIM domain protein 2 isoform X1

      UniProtKB/TrEMBL
      A6HTJ1
      Related
      ENSRNOP00000101268.1, ENSRNOT00000135672.1

    4. XM_006252256.5 → XP_006252318.1  PDZ and LIM domain protein 2 isoform X2

      See identical proteins and their annotated locations for XP_006252318.1

      UniProtKB/Swiss-Prot
      Q6AYD6
      UniProtKB/TrEMBL
      A6HTJ1, A6HTJ3
      Conserved Domains (3) summary
      cd09449
      Location:283 → 335
      LIM_Mystique; The LIM domain of Mystique, a subfamily of ALP LIM domain proteins
      cd00992
      Location:9 → 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:190 → 252
      DUF4749; Domain of unknown function (DUF4749)

    5. XM_063274141.1 → XP_063130211.1  PDZ and LIM domain protein 2 isoform X4

      UniProtKB/TrEMBL
      A6HTJ4

    6. XM_063274140.1 → XP_063130210.1  PDZ and LIM domain protein 2 isoform X4

      UniProtKB/TrEMBL
      A6HTJ4
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6AYD6.1 GenPept UniProtKB/Swiss-Prot:Q6AYD6

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