Pdlim2 PDZ and LIM domain 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Pdlim2provided by MGI
Official Full Name: PDZ and LIM domain 2provided by MGI
Primary source: MGI:MGI:2384850
See related: Ensembl:ENSMUSG00000022090 AllianceGenome:MGI:2384850
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Slim; 4732462F18Rik
Summary: Enables ubiquitin protein ligase binding activity. Involved in protein catabolic process. Predicted to be located in cortical actin cytoskeleton. Predicted to be part of filamentous actin. Predicted to be active in Z disc; adherens junction; and stress fiber. Is expressed in embryo. Orthologous to human PDLIM2 (PDZ and LIM domain 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Broad expression in lung adult (RPKM 101.4), small intestine adult (RPKM 50.1) and 16 other tissues See more
Orthologs: human all
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Genomic context

Location:: 14 D2; 14 36.26 cM

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	14	NC_000080.7 (70401667..70415140, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	14	NC_000080.6 (70162621..70177672, complement)

Chromosome 14 - NC_000080.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

PDLIM2 repression by ROS in alveolar macrophages promotes lung tumorigenesis.
Title: PDLIM2 repression by ROS in alveolar macrophages promotes lung tumorigenesis.
PDLIM7 Synergizes With PDLIM2 and p62/Sqstm1 to Inhibit Inflammatory Signaling by Promoting Degradation of the p65 Subunit of NF-kappaB.
Title: PDLIM7 Synergizes With PDLIM2 and p62/Sqstm1 to Inhibit Inflammatory Signaling by Promoting Degradation of the p65 Subunit of NF-κB.
PDLIM2 protects articular chondrocytes from lipopolysaccharide-induced apoptosis, degeneration and inflammatory injury through down-regulation of nuclear factor (NF)-kappaB signaling.
Title: PDLIM2 protects articular chondrocytes from lipopolysaccharide-induced apoptosis, degeneration and inflammatory injury through down-regulation of nuclear factor (NF)-κB signaling.
By 19 months of age, all PDLIM2-/- mice, compared to less than 10% of wild-type (WT) mice, spontaneously developed tumors. 50% of them were lung tumors. PDLIM2 -/- mice were also more sensitive to K-RasG12D-induced lung tumorigenesis
Title: Causative role of PDLIM2 epigenetic repression in lung cancer and therapeutic resistance.
Reducing NF-kappaB activation attenuates PDLIM2 deficiency-exacerbated inflammation and dyslipidemia in Palmitate -treated primary hepatocytes.
Title: Suppression of NF-κB activation by PDLIM2 restrains hepatic lipogenesis and inflammation in high fat diet induced mice.
Klotho can modulate inflammation via PDLIM2/NF-kappaB p65 pathway in cyclosporine A-induced nephropathy.
Title: Klotho ameliorates cyclosporine A-induced nephropathy via PDLIM2/NF-kB p65 signaling pathway.
Deficiency in PDLIM2 resulted in the accumulation of STAT3 in the nucleus, enhanced the extent of TH17 cell differentiation, and exacerbated granuloma formation.
Title: PDLIM2 inhibits T helper 17 cell development and granulomatous inflammation through degradation of STAT3.
Pdlim2 is a novel actin-regulating protein of podocyte foot processes that may have a role in the pathogenesis of glomerular diseases.
Title: Pdlim2 is a novel actin-regulating protein of podocyte foot processes.
PDLIM2 expression was sufficient to suppress in vitro anchorage-independent growth and in vivo tumor formation of colon cancer. PDLIM2 repression involves promoter methylation.
Title: DNA methylation-dependent repression of PDZ-LIM domain-containing protein 2 in colon cancer and its role as a potential therapeutic target.
Suppression of PDLIM2 expression resulted in decreased cell adhesion, increased NF-kappaB transcription reporter activity, and increased LPS-induced TNF-alpha production.
Title: Sequestration of PDLIM2 in the cytoplasm of monocytic/macrophage cells is associated with adhesion and increased nuclear activity of NF-kappaB.

Submit: New GeneRIF Correction See all GeneRIFs (14)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Targeted (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables actin binding	IBA Inferred from Biological aspect of Ancestor more info
enables alpha-actinin binding	ISO Inferred from Sequence Orthology more info
enables filamin binding	IEA Inferred from Electronic Annotation more info
enables filamin 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 muscle alpha-actinin binding	IEA Inferred from Electronic Annotation more info
enables muscle alpha-actinin binding	ISO Inferred from Sequence Orthology more info
enables myosin heavy chain binding	IEA Inferred from Electronic Annotation more info
enables myosin heavy chain binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin protein ligase binding	IPI Inferred from Physical Interaction more info	PubMed

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	IMP Inferred from Mutant Phenotype more info	PubMed

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	IEA Inferred from Electronic Annotation more info
located_in cortical actin cytoskeleton	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
located_in stress fiber	IEA Inferred from Electronic Annotation more info
located_in stress fiber	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: PDZ and LIM domain protein 2

Names: PDZ-LIM protein mystique; STAT-interacting LIM protein; mystique

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)

NM_001253736.1 → NP_001240665.1 PDZ and LIM domain protein 2

See identical proteins and their annotated locations for NP_001240665.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.

Source sequence(s)

AC151836, BE634101, BY072232, DV646822

Consensus CDS

CCDS27248.1

UniProtKB/Swiss-Prot

Q8R1G6

Related

ENSMUSP00000116200.2, ENSMUST00000153735.8

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:198 → 252

DUF4749; Domain of unknown function (DUF4749)
NM_145978.2 → NP_666090.1 PDZ and LIM domain protein 2

See identical proteins and their annotated locations for NP_666090.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) and variant 2 encode the same protein.

Source sequence(s)

AC151836

Consensus CDS

CCDS27248.1

UniProtKB/Swiss-Prot

Q8R1G6

Related

ENSMUSP00000022681.5, ENSMUST00000022681.11

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:198 → 252

DUF4749; Domain of unknown function (DUF4749)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000080.7 Reference GRCm39 C57BL/6J

Range

70401667..70415140 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030247711.2 → XP_030103571.1 PDZ and LIM domain protein 2 isoform X3

Conserved Domains (3) summary

cd09449
Location:246 → 298

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:153 → 215

DUF4749; Domain of unknown function (DUF4749)
XM_030247710.2 → XP_030103570.1 PDZ and LIM domain protein 2 isoform X2

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)
XM_036158534.1 → XP_036014427.1 PDZ and LIM domain protein 2 isoform X1

UniProtKB/Swiss-Prot

Q8R1G6

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:198 → 252

DUF4749; Domain of unknown function (DUF4749)
XM_006518783.5 → XP_006518846.1 PDZ and LIM domain protein 2 isoform X4

Conserved Domains (2) summary

cd09449
Location:224 → 276

LIM_Mystique; The LIM domain of Mystique, a subfamily of ALP LIM domain proteins

pfam15936
Location:141 → 193

DUF4749; Domain of unknown function (DUF4749)