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PDLIM7 Gene

protein-coding GIFtS: 58
GCID: GC05M176912

PDZ And LIM Domain 7 (Enigma)

See PDLIM7-related diseases
at

MalaCards

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, ¹⁰fRNAdb, ¹²H-InvDB, ¹³NCBI, ¹⁴NONCODE, and/or ¹⁵RNAdb)
About This Section

Aliases
PDZ And LIM Domain 7 (Enigma)¹ ²		LMP3²
Protein Enigma² ³		LIM Domain Protein²
LMP² ³		Lim Mineralization Protein 3²
ENIGMA³ ⁵		PDZ And LIM Domain Protein 7²
1110003B01Rik²		LIM Mineralization Protein³
LMP1²

External Ids:	HGNC: 22958¹	Entrez Gene: 9260²	Ensembl: ENSG00000196923⁷	OMIM: 605903⁵	UniProtKB: Q9NR12³

Export aliases for PDLIM7 gene to outside databases

Previous GC identifers: GC00U914366 GC05M177024 GC05M176843 GC05M171830

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for PDLIM7 Gene:

The protein encoded by this gene is representative of a family of proteins composed of conserved PDZ and LIM

domains. LIM domains are proposed to function in protein-protein recognition in a variety of contexts including

gene transcription and development and in cytoskeletal interaction. The LIM domains of this protein bind to

protein kinases, whereas the PDZ domain binds to actin filaments. The gene product is involved in the assembly of

an actin filament-associated complex essential for transmission of ret/ptc2 mitogenic signaling. The biological

function is likely to be that of an adapter, with the PDZ domain localizing the LIM-binding proteins to actin

filaments of both skeletal muscle and nonmuscle tissues. Alternative splicing of this gene results in multiple

transcript variants. (provided by RefSeq, Jul 2008)

GeneCards Summary for PDLIM7 Gene:

PDLIM7 (PDZ and LIM domain 7 (enigma)) is a protein-coding gene. Diseases associated with PDLIM7 include pleural empyema, and nasopharynx carcinoma. An important paralog of this gene is LIMS1.

UniProtKB/Swiss-Prot: PDLI7_HUMAN, Q9NR12

Function: May function as a scaffold on which the coordinated assembly of proteins can occur. May play a role as

an adapter that, via its PDZ domain, localizes LIM-binding proteins to actin filaments of both skeletal muscle

and nonmuscle tissues. Involved in both of the two fundamental mechanisms of bone formation, direct bone

formation (e.g. embryonic flat bones mandible and cranium), and endochondral bone formation (e.g. embryonic long

bone development). Plays a role during fracture repair. Involved in BMP6 signaling pathway (By similarity)

Gene Wiki entry for PDLIM7 Gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
About This Section

RefSeq DNA sequence at NCBI GenBank:

NC_000005.9 NT_023133.14 NC_018916.2

Regulatory elements:

Regulatory transcription factor binding sites in the PDLIM7 gene promoter:
E2F-3a E2F-1 E2F AP-1 E2F-2 IRF-1
Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: PDLIM7 promoter sequence

Search Chromatin IP Primers for PDLIM7

Epigenetics:

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat PDLIM7

Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 5q35.3 Ensembl cytogenetic band: 5q35.3 HGNC cytogenetic band: 5q35.3

PDLIM7 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
PDLIM7 gene location

GeneLoc information about chromosome 5 GeneLoc Exon Structure

GeneLoc location for GC05M176912: view genomic region (about GC identifiers)

Start:	176,910,395 bp from pter	End:	176,924,607 bp from pter
Size:	14,213 bases	Orientation:	minus strand

(According to ¹UniProtKB, HORDE, ²neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, antibodies-online, and/or GeneTex,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
About This Section

UniProtKB/Swiss-Prot: PDLI7_HUMAN, Q9NR12 (See protein sequence)

Recommended Name: PDZ and LIM domain protein 7

Size: 457 amino acids; 49845 Da

Subunit: Binds via its LIM zinc-binding 3 domain (LIM 3) to endocytic codes of INSR, but not with those of IGF1R,

LDLR, TFRC, or EGFR. Interacts with various PKC isoforms through the LIM zinc-binding domains. Binds to RET in a

phosphorylation-independent manner via its LIM zinc-binding domain 2 (LIM 2). Probably part of a complex with SHC

and the RET dimer. Interacts with TPM2. Interacts with TBX4 and TBX5 (By similarity)

Sequence caution: Sequence=AAC37565.1; Type=Frameshift; Positions=103, 128, 161, 183, 195, 245;

1 PDB 3D structure from and Proteopedia for PDLIM7:

2Q3G (3D)

Secondary accessions: Q14250 Q5XG82 Q6NVZ5 Q96C91 Q9BXB8 Q9BXB9

Alternative splicing: 6 isoforms: Q9NR12-1 Q9NR12-2 Q9NR12-3 Q9NR12-4 Q9NR12-5 Q9NR12-6 (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for PDLIM7: NX_Q9NR12

Explore proteomics data for PDLIM7 at MOPED

Post-translational modifications:

Modification sites at neXtProt

Modification sites at PhosphoSitePlus

See PDLIM7 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (3 alternative transcripts):

NP_005442.2 NP_976227.1 NP_998801.1

ENSEMBL proteins:

ENSP00000431236 ENSP00000352964 ENSP00000348099 ENSP00000439157 ENSP00000377182

ENSP00000426213 ENSP00000347776 ENSP00000377177 ENSP00000424850 ENSP00000422363

ENSP00000421664 ENSP00000349030

PDLIM7 Human Recombinant Protein Products:

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	Novus Biologicals PDLIM7 Protein Novus Biologicals PDLIM7 Lysates
	Browse Sino Biological Recombinant Proteins Browse Sino Biological Cell Lysates
	Browse ProSpec Recombinant Proteins
	Cloud-Clone Corp. Proteins for PDLIM7
	Search eBioscience for Proteins for PDLIM7
	Search GeneTex for Proteins for PDLIM7
	antibodies-online proteins for PDLIM7 (5 products)
	antibodies-online peptides for PDLIM7

PDLIM7 Antibody Products:

	Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
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	Novus Biologicals PDLIM7 Antibodies
	Abcam antibodies for PDLIM7
	Cloud-Clone Corp. Antibodies for PDLIM7
	ThermoFisher Antibodies for PDLIM7
	antibodies-online antibodies for PDLIM7 (61 products)

PDLIM7 Assay Products:

	Browse Kits and Assays available from EMD Millipore
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	GenScript Custom Assay Services for PDLIM7
	Browse Enzo Life Sciences for kits & assays
	Cloud-Clone Corp. ELISAs for PDLIM7 Cloud-Clone Corp. CLIAs for PDLIM7
	Search eBioscience for ELISAs for PDLIM7
	antibodies-online kits for PDLIM7 (23 products)

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GenesLikeMe)
About This Section

2 InterPro protein domains:

IPR001478 PDZ

IPR001781 Znf_LIM

Graphical View of Domain Structure for InterPro Entry Q9NR12

ProtoNet protein and cluster: Q9NR12

2 Blocks protein domains:

IPB001478 PDZ/DHR/GLGF domain

IPB001781 Zn-binding protein

UniProtKB/Swiss-Prot: PDLI7_HUMAN, Q9NR12

Domain: The LIM zinc-binding 2 (LIM 2) domain interacts with TBX4 (By similarity)

Domain: The LIM zinc-binding 3 (LIM 3) domain provides the structural basis for recognition of tyrosine-containing

tight turn structures. This domain is necessary and sufficient for interaction with TBX5 (By similarity)

Domain: Anchored to cell periphery via its N-terminal PDZ domain

Similarity: Contains 3 LIM zinc-binding domains

Similarity: Contains 1 PDZ (DHR) domain

Find genes that share domains with PDLIM7 About GenesLikeMe

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
About This Section

Molecular Function:

UniProtKB/Swiss-Prot Summary: PDLI7_HUMAN, Q9NR12

Function: May function as a scaffold on which the coordinated assembly of proteins can occur. May play a role as

an adapter that, via its PDZ domain, localizes LIM-binding proteins to actin filaments of both skeletal muscle

and nonmuscle tissues. Involved in both of the two fundamental mechanisms of bone formation, direct bone

formation (e.g. embryonic flat bones mandible and cranium), and endochondral bone formation (e.g. embryonic long

bone development). Plays a role during fracture repair. Involved in BMP6 signaling pathway (By similarity)

Gene Ontology (GO): 2 molecular function terms: About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005515	protein binding	IPI	16713569
GO:0008270	zinc ion binding	IEA	--

Find genes that share ontologies with PDLIM7 About GenesLikeMe

Animal Models:

genOway: Develop your customized and physiologically relevant rodent model for PDLIM7

miRNA Products:		miRTarBase miRNAs that target PDLIM7: hsa-mir-24-3p (MIRT030427), hsa-mir-124-3p (MIRT002914), hsa-mir-30a-5p (MIRT028432), hsa-mir-132-3p (MIRT045848), hsa-mir-1 (MIRT001351)

		Block miRNA regulation of human, mouse, rat PDLIM7 using miScript Target Protectors
		2 qRT-PCR Assays for microRNAs that regulate PDLIM7:
		hsa-miR-644 hsa-miR-3065-3p
		SwitchGear 3'UTR luciferase reporter plasmid: PDLIM7 3' UTR sequence

Inhib. RNA Products:		OriGene RNAi products in human, mouse, rat for PDLIM7
		Predesigned siRNA for gene silencing in human, mouse, rat PDLIM7

Gene Editing
Products:

DNA2.0 Custom Protein Engineering Service for PDLIM7

Clone Products:		OriGene clones in human, mouse for PDLIM7 (see all 22) OriGene ORF clones in mouse, rat for PDLIM7 OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector (see all 3): PDLIM7 (NM_213636)
		Browse Sino Biological Human cDNA Clones
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for PDLIM7
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PDLIM7
		Addgene plasmids for PDLIM7

Cell Line Products:		GenScript Custom overexpressing Cell Line Services for PDLIM7
		Browse ESI BIO Cell Lines and PureStem Progenitors for PDLIM7

In Situ Assay
Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PDLIM7

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
About This Section

Subcellular locations from UniProtKB/Swiss-Prot

PDLI7_HUMAN, Q9NR12: Cytoplasm (By similarity). Cytoplasm, cytoskeleton (By similarity). Note=Colocalizes with

RET to the cell periphery and in some cytoskeletal components. Colocalizes with TPM2 near the Z line in muscle.

Colocalizes with TBX4 and TBX5 to actin filaments (By similarity)

Subcellular locations from COMPARTMENTS:

Compartment	Confidence
cytoskeleton	4
cytosol	3
nucleus	3
extracellular	1
plasma membrane	1

About this image

Gene Ontology (GO): Selected cellular component terms (see all 7): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0001725	stress fiber	IEA	--
GO:0001726	ruffle	IEA	--
GO:0005634	nucleus	IDA	--
GO:0005737	cytoplasm	IEA	--
GO:0005925	focal adhesion	IDA	--

Find genes that share ontologies with PDLIM7 About GenesLikeMe

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GenesLikeMe, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
About This Section

SuperPaths for PDLIM7 About

See pathways by source

Powered
by

SuperPath

Contained pathways About

GDNF-Family Ligands and Receptor Interactions

GDNF-Family Ligands and Receptor Interactions

0.41

Development GDNF family signaling

0.41

Signaling events regulated by Ret tyrosine kinase

Signaling events regulated by Ret tyrosine kinase

EBV LMP1 signaling

EBV LMP1 signaling

Pathways by source See SuperPaths
Show all pathways

1 Downloadable PowerPoint Slide of GeneGlobe Pathway Central Maps for PDLIM7

GDNF-Family Ligands and Receptor Interactions

1 GeneGo (Thomson Reuters) Pathway for PDLIM7

Development GDNF family signaling

2 BioSystems Pathways for PDLIM7

	EBV LMP1 signaling
	Signaling events regulated by Ret tyrosine kinase

Pathway & Disease-focused RT² Profiler PCR Array including PDLIM7:

Lymphoma in human mouse rat

Interactions:

GeneGlobe Interaction Network for PDLIM7

STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

Selected Interacting proteins for PDLIM7 (Q9NR12^{1, 2, 3} ENSP00000348099⁴) via UniProtKB, MINT, STRING, and/or I2D (see all 876)

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
PCBP1	Q15365²^,³, ENSP00000305556⁴	MINT-2866295 MINT-7947479 I2D: score=3 STRING: ENSP00000305556
BSG	P35613²^,³, ENSP00000333769⁴	MINT-67881 I2D: score=5 STRING: ENSP00000333769
C20orf195	Q9BVV2²^,³, ENSP00000359115⁴	MINT-68104 I2D: score=5 STRING: ENSP00000359115
PAK7	Q9P286²^,³, ENSP00000322957⁴	MINT-66298 I2D: score=4 STRING: ENSP00000322957
PRKD2	Q9BZL6²^,³	MINT-61756 I2D: score=2

About this table

Gene Ontology (GO): Selected biological process terms (see all 6): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0001503	ossification	IEA	--
GO:0006898	receptor-mediated endocytosis	TAS	7929196
GO:0007275	multicellular organismal development	IEA	--
GO:0030036	actin cytoskeleton organization	IEA	--
GO:0030154	cell differentiation	IEA	--

Find genes that share ontologies with PDLIM7 About GenesLikeMe

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, Sets of similar genes according to GenesLikeMe)
About This Section

Browse Small Molecules at EMD Millipore

Browse drugs & compounds from Enzo Life Sciences

Browse compounds at ApexBio

Browse Tocris compounds for PDLIM7 (PDLI7)

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
About This Section

REFSEQ mRNAs for PDLIM7 gene (9 alternative transcripts):

NM_005451.4 NM_203352.2 NM_203353.1 NM_213636.2 XM_006714937.1 XM_006714938.1 XM_006714939.1 XM_006714940.1

XM_006714941.1

Unigene Cluster for PDLIM7:

PDZ and LIM domain 7 (enigma)

Hs.533040 [show with all ESTs]

Unigene Representative Sequence: AK096826

17 Ensembl transcripts including schematic representations, and UCSC links where relevant:

ENST00000493815 ENST00000359895 ENST00000355841 ENST00000486828(uc003mha.1 uc003mhb.1 uc003mhc.1 uc003mhd.1 uc003mhe.1)

ENST00000504380 ENST00000505746 ENST00000393551(uc003mhf.3) ENST00000505074

ENST00000355572(uc003mhg.1) ENST00000393546 ENST00000506161 ENST00000504318

ENST00000503346 ENST00000503827 ENST00000463411 ENST00000506537 ENST00000356618

miRNA Products:		Block miRNA regulation of human, mouse, rat PDLIM7 using miScript Target Protectors
		2 qRT-PCR Assays for microRNAs that regulate PDLIM7:
		hsa-miR-644 hsa-miR-3065-3p
		SwitchGear 3'UTR luciferase reporter plasmid: PDLIM7 3' UTR sequence

Inhib. RNA Products:		OriGene RNAi products in human, mouse, rat for PDLIM7
		Predesigned siRNA for gene silencing in human, mouse, rat PDLIM7

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		GenScript: all cDNA clones in your preferred vector (see all 3): PDLIM7 (NM_213636)
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for PDLIM7
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PDLIM7
		Addgene plasmids for PDLIM7

Primer Products:		OriGene qPCR primer pairs and template standards for PDLIM7 OriGene qSTAR qPCR primer pairs in human, mouse for PDLIM7
		Pre-validated RT² qPCR Primer Assay in human, mouse / rat PDLIM7
		QuantiTect SYBR Green Assays in human, mouse, rat PDLIM7
		QuantiFast Probe-based Assays in human, mouse, rat PDLIM7

Additional mRNA sequence:

AF265209.1 AF345904.1 AF345905.1 AK096826.1 BC001093.2 BC007648.1 BC014521.2 BC023629.2

BC084575.1 DQ291143.1

24 DOTS entries:

DT.85105616 DT.91896419 DT.120862389 DT.92443476 DT.102839668 DT.91854702 DT.100894868 DT.120862440

DT.91714237 DT.97854788 DT.100030242 DT.97854787 DT.100811139 DT.100811141 DT.100727135 DT.97813779

DT.120862455 DT.95085177 DT.95085210 DT.120862462 DT.100811148 DT.86856066 DT.92443473 DT.121623182

Selected AceView cDNA sequences (see all 403):

AW978360 AI973049 AA295228 AI740557 AW206786 BI198984 CB048966 BF477752

BF003106 BM700981 BQ690105 BM708868 BQ923519 F27712 AI868905 AI658775

BE858022 BG750171 BQ936363 BQ929859 AI817730 BM695955 AW118632 BF434968

GeneLoc Exon Structure

Selected Alternative Splicing Database (ASD) splice patterns (SP) for PDLIM7 (see all 13) About this scheme

ExUns:	1a	·	1b	^	2a	·	2b	^	3a	·	3b	^	4a	·	4b	^	5a	·	5b	·	5c	·	5d	^	6a	·	6b	·	6c	^	7a	·	7b	·	7c	·	7d	^	8	^	9a	·	9b	·	9c	^	10	^	11a	·	11b	^
SP1:					-		-												-		-		-		-		-				-										-										-
SP2:					-		-												-		-		-		-		-				-										-		-								-
SP3:					-		-						-		-		-		-		-		-		-						-																				-
SP4:					-		-												-		-		-		-		-				-										-		-		-
SP5:					-		-												-		-		-		-		-				-

ExUns:	12a	·	12b	^	13	^	14
SP1:	-
SP2:	-
SP3:	-
SP4:
SP5:

ECgene alternative splicing isoforms for PDLIM7

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GenesLikeMe, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE ¹MOPED, ²PaxDb, and ³MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

PDLIM7 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: TGTGAGCCCC

About this image

PDLIM7 expression in embryonic tissues and stem cells About this table

Data from LifeMap, the Embryonic Development and Stem Cells Database
selected tissues (see all 3) fully expand


Blood (Cardiovascular System) fully expand to see all 2 entries
Granulocytes Peripheral Blood

Spleen (Hematopoietic System)
Conventional Dendritic Cells I Spleen

Skeletal Muscle (Muscoskeletal System)

PDLIM7 Protein expression data from MOPED¹, PaxDb² and MaxQB³:

About this image

PDLIM7 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.533040

UniProtKB/Swiss-Prot: PDLI7_HUMAN, Q9NR12

Tissue specificity: Isoform 1 and isoform 2 are expressed ubiquitously, however, isoform 2 predominates in

skeletal muscle, isoform 1 is more abundant in lung, spleen, leukocytes and fetal liver

Pathway & Disease-focused RT² Profiler PCR Array including PDLIM7:

Lymphoma in human mouse rat

Primer Products:		OriGene qPCR primer pairs and template standards for PDLIM7 OriGene qSTAR qPCR primer pairs in human, mouse for PDLIM7
		Pre-validated RT² qPCR Primer Assay in human, mouse / rat PDLIM7
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		QuantiFast Probe-based Assays in human, mouse, rat PDLIM7

In Situ
Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PDLIM7

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of animals.

Orthologs for PDLIM7 gene from Selected species (see all 14) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
mouse (Mus musculus)	Mammalia	Pdlim7^{1 , 5}	PDZ and LIM domain 7^{1, 5}	88.4(n)¹ 93.87(a)¹		13 (30.06 cM)⁵ 67399¹ NM_001114088.2¹ NP_001107560.1¹ 55495795⁵
chicken (Gallus gallus)	Aves	PDLIM7¹	PDZ and LIM domain 7 (enigma)	75.28(n) 75.12(a)		416362 NM_001005345.1 NP_001005345.2
lizard (Anolis carolinensis)	Reptilia	PDLIM7⁶	PDZ and LIM domain 7 (enigma)	77(a)	1 ↔ 1	2(145657233-145711291)
tropical clawed frog (Xenopus tropicalis)	Amphibia	Str.15717²	Transcribed sequence with weak similarity to protein more	79.81(n)		AL848905.2
zebrafish (Danio rerio)	Actinopterygii	zgc65907²	hypothetical protein MGC65907	76.79(n)		393813 BC061704.1
fruit fly (Drosophila melanogaster)	Insecta	Zasp52⁶	Z band alternatively spliced PDZ-motif protein 52	7(a)	1 → many	2R(11650070-11704509)
worm (Caenorhabditis elegans)	Secernentea	alp-1⁶	Protein ALP-1, isoform d	11(a)	1 → many	IV(8852500-8862487) WBGene00001132

ENSEMBL Gene Tree for PDLIM7 (if available)
TreeFam Gene Tree for PDLIM7 (if available)

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68,Sets of similar genes according to GenesLikeMe)
About This Section

Paralogs for PDLIM7 gene

LIMS1² LIMS3L² FHL3² FHL5² LDB3² LPXN² FHL1² ENSG00000257207²

LIMS3² TGFB1I1² PDLIM5² PXN² LIMS2² FHL2²

10 SIMAP similar genes for PDLIM7 using alignment to 6 protein entries: PDLI7_HUMAN (see all proteins):

PDLIM3 PDLIM5 SYNPO2 PDLIM2 SLC9A3R1 SNTG1

USH1C MAGI1 SCRIB GRIP1

Find genes that share paralogs with PDLIM7 About GenesLikeMe

1 Pseudogenes.org Pseudogene for PDLIM7
PGOHUM00000249601

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, ⁴UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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SNP ID	Valid	Clinical significance	Chr 5 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
VAR_036193⁴		A breast cancer sample⁴	--	see VAR_036193	2	K N	mis⁴		0	--	--	--	--
rs60583245^1,2	C	--	171834285(+)	`TTTTT-/TTTTT GCTGT`	2	--	int¹		1		NA	2
rs142866299^1,2		--	176909903(+)	`GCTCGC/TGCGCA`	2	--	ds500¹		0	--	--	--	--
rs335427^1,2	C	--	176909905(-)	`ACTGCG/ACGCGA`	2	--	ds500¹		4		NA EA	244
rs144941702^1,2		--	176910023(+)	`AATTTC/TTGTAT`	2	--	ds500¹		0	--	--	--	--
rs148305247^1,2		--	176910072(+)	`GTCTCC/GAACTC`	2	--	ds500¹		0	--	--	--	--
rs115577587^1,2	C,F	--	176910083(+)	`CTGACC/TTCAAG`	2	--	ds500¹		1		NA	120
rs56206844^1,2	C	--	176910206(+)	`CTCCCC/TTCATG`	2	--	ds500¹		0	--	--	--	--
rs28524883^1,2	C	--	176910399(+)	`ACACAG/ACTGGG`	2	--	ut3¹ ese³		3		NA WA	122
rs187597792^1,2		--	176910404(+)	`GCTGGA/GTACAG`	2	--	ut3¹		0	--	--	--	--

HapMap Linkage Disequilibrium report for PDLIM7 (176910395 - 176924607 bp)

Structural Variations
Database of Genomic Variants (DGV) 7 variations for PDLIM7: About this table

Variant ID	Type	Subtype	PubMed ID
nsv883179	CNV	Loss	21882294
dgv6379n71	CNV	Loss	21882294
nsv883180	CNV	Loss	21882294
nsv883177	CNV	Loss	21882294
dgv6383n71	CNV	Loss	21882294
dgv6381n71	CNV	Loss	21882294
nsv883164	CNV	Loss	21882294

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB, Sets of similar genes according to GenesLikeMe)
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OMIM gene information: 605903 OMIM disorders: --

2 diseases for PDLIM7:
About MalaCards

pleural empyema nasopharynx carcinoma

4 inferred disease relationships from the University of Copenhagen DISEASES database for PDLIM7:

Nasopharynx carcinoma Lymphoma Infectious mononucleosis Pleural empyema

Find genes that share disorders with PDLIM7 About GenesLikeMe

Export disorders for PDLIM7 gene to outside databases

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
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PubMed articles for PDLIM7 gene, integrated from 10 sources (see all 63):
(articles sorted by number of sources associating them with PDLIM7)

Overexpressed LIM mineralization proteins do not require LIM domains to induce bone. (PubMed id 11874232)^{1, 2, 3} Liu Y.... Titus L. (J. Bone Miner. Res. 2002)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{1, 2} Gerhard D.S.... Malek J. (Genome Res. 2004)
The PDZ domain of the LIM protein enigma binds to beta-tropomyosin. (PubMed id 10359609)^{1, 2} Guy P.M.... Gill G.N. (Mol. Biol. Cell 1999)
Shc and Enigma are both required for mitogenic signaling by Ret/ptc2. (PubMed id 9528800)^{1, 2} Durick K.... Taylor S.S. (Mol. Cell. Biol. 1998)
Protein-protein interaction of zinc finger LIM domains with protein kinase C. (PubMed id 8940095)^{1, 2} Kuroda S.... Kikkawa U. (J. Biol. Chem. 1996)
LIM domain recognition of a tyrosine-containing tight turn. (PubMed id 7929196)^{1, 2} Wu R.-Y. and Gill G.N. (J. Biol. Chem. 1994)
Modeling and analysis of molecularinteraction between Smurf1-WW2 domain and various isoforms of LIM mineralization protein. (PubMed id 17510966)^{1, 9} Sangadala S....Reddy B.V. (Proteins 2007)
Poly(ADP-ribose) polymerase-1 modulates Nrf2-dependent transcription. (PubMed id 24140708)¹ Wu T....Zhang D.D. (amp 2014)
Characterization of a unique motif in LIM mineralization protein-1 that interacts with jun activation-domain-binding protein 1. (PubMed id 24078030)¹ Sangadala S....Boden S.D. (Mol. Cell. Biochem. 2014)
Protein interaction network of the mammalian Hippo pathway reveals mechanisms of kinase-phosphatase interactions. (PubMed id 24255178)¹ Couzens A.L....Gingras A.C. (Sci Signal 2013)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
Free Text

Query String		PubMed OMIM NCBI Bookshelf
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(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 9260	HGNC: 22958	AceView: PDLIM7	Ensembl:ENSG00000196923	euGenes: HUgn9260
ECgene: PDLIM7	H-InvDB: PDLIM7

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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Name	Description
PharmGKB entry for PDLIM7	Pharmacogenomics, SNPs, Pathways

Intellectual Property for PDLIM7 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

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Patent Information for PDLIM7 gene:
Search GeneIP for patents involving PDLIM7

GeneCards and IP:
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PDLIM7 Gene

PDZ And LIM Domain 7 (Enigma)

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PDZ And LIM Domain 7 (Enigma)

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