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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

PDLIM5 Gene

protein-coding   GIFtS: 57
GCID: GC04P095373

PDZ and LIM domain 5
 Explore 34 diseases affiliated with
PDLIM5 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for PDLIM5    

Aliases
for PDLIM5 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
PDZ And LIM Domain 51 2     Enh1
ENH2 3 5     ENH12
LIM1 2     Enigma-Like LIM Domain Protein2
Enigma Homolog2 3     PDZ And LIM Domain Protein 52
Enigma-Like PDZ And LIM Domains Protein2 3     

External Ids:    HGNC: 174681   Entrez Gene: 106112   Ensembl: ENSG000001631107   OMIM: 6059045   UniProtKB: Q96HC43   
ORGUL members:         
NONCODE:n406648    

Export aliases for PDLIM5 gene to outside databases

Previous GC identifers: GC04P095731 GC04P095592 GC04P091110


Summaries
for PDLIM5 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for PDLIM5:
This gene encodes a member of a family of proteins that possess a 100-amino acid PDZ domain at the N terminus and one
to three LIM domains at the C-terminus. This family member functions as a scaffold protein that tethers protein
kinases to the Z-disk in striated muscles. It is thought to function in cardiomyocyte expansion and in restraining
postsynaptic growth of excitatory synapses. Alternative splicing of this gene results in multiple transcript variants.
(provided by RefSeq, Jan 2012)

UniProtKB/Swiss-Prot: PDLI5_HUMAN, Q96HC4
Function: May play an important role in the heart development by scaffolding PKC to the Z-disk region. May play a role
in the regulation of cardiomyocyte expansion. Overexpression promotes the development of heart hypertrophy.
Contributes to the regulation of dendritic spine morphogenesis in neurons. May restrain postsynaptic growth of
excitatory synapses (By similarity)

Gene Wiki entry for PDLIM5


Genomic Views
for PDLIM5 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000004.11  NC_018915.1  NT_016354.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the PDLIM5 gene promoter:
         SRF   SRF (504 AA)   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: PDLIM5 promoter sequence
   Search SABiosciences Chromatin IP Primers for PDLIM5

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PDLIM5


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

Entrez Gene cytogenetic band: 4q22   Ensembl cytogenetic band:  4q22.3   HGNC cytogenetic band: 4q22

PDLIM5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
PDLIM5 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P095373:  view genomic region     (about GC identifiers)

Start:
 95,373,037 bp from pter      End:
 95,589,377 bp from pter
Size:
 216,341 bases      Orientation:
 plus strand

Proteins
for PDLIM5 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: PDLI5_HUMAN, Q96HC4 (See protein sequence)
Recommended Name: PDZ and LIM domain protein 5  
Size: 596 amino acids; 63945 Da
Subunit: Interacts with various PKC isoforms through the LIM domains. Interacts (via LIM domains) with SIPA1L1.
Interacts (via PDZ domain) with actin and ACTN1 (By similarity)
Subcellular location: Cell junction, synapse, postsynaptic cell membrane, postsynaptic density (By similarity). Cell
junction, synapse, synaptosome (By similarity). Cytoplasm (By similarity). Note=Detected both at presynaptic and
postsynaptic sites (By similarity)
2 PDB 3D structures from and Proteopedia for PDLIM5:
2DAR (3D)        2UZC (3D)    
Secondary accessions: A8K6F9 O60705 Q56VN4 Q5UW38 Q8WVK0
Alternative splicing: 5 isoforms:  Q96HC4-1   Q96HC4-2   Q96HC4-3   Q96HC4-4   Q96HC4-5   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for PDLIM5: NX_Q96HC4

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q96HC4

    • PDLIM5 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (9 alternative transcripts): 
    NP_001011513.3  NP_001011515.1  NP_001011516.1  NP_001243354.1  NP_001243355.1  NP_001243356.1  NP_001243357.1  NP_001243358.1  
    NP_006448.4  

    ENSEMBL proteins: 
     ENSP00000352210   ENSP00000321746   ENSP00000426379   ENSP00000424297   ENSP00000423009  
     ENSP00000426804   ENSP00000424360   ENSP00000422833   ENSP00000429577   ENSP00000422528  
     ENSP00000398469   ENSP00000369527   ENSP00000322021   ENSP00000401579   ENSP00000439795  
     ENSP00000442187  

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    Novus Biologicals PDLIM5 Protein
    Novus Biologicals PDLIM5 Lysate
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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for PDLIM5

    Gene Ontology (GO): 5/10 cellular component terms (GO ID links to tree view) (see all 10):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005624membrane fraction ----
    GO:0005829cytosol ISS--
    GO:0005886plasma membrane IEA--
    GO:0014069postsynaptic density ISS--
    GO:0015629actin cytoskeleton IDA--


    PDLIM5 for ontologies           About GeneDecksing



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    Uscn Antibodies for PDLIM5
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    Assay Products for PDLIM5: 
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    Uscn ELISAs and CLIAs for PDLIM5

    Protein Domains /
    Families
    for PDLIM5 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    PDLIM5 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR001478 PDZ
     IPR001781 Znf_LIM

    Graphical View of Domain Structure for InterPro Entry Q96HC4

    ProtoNet protein and cluster: Q96HC4

    2 Blocks protein families:
    IPB001478 PDZ/DHR/GLGF domain
    IPB001781 Zn-binding protein


    UniProtKB/Swiss-Prot: PDLI5_HUMAN, Q96HC4
    Similarity: Contains 3 LIM zinc-binding domains
    Similarity: Contains 1 PDZ (DHR) domain


    Function
    for PDLIM5 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    Function Summary:

         UniProtKB/Swiss-Prot: PDLI5_HUMAN, Q96HC4
    Function: May play an important role in the heart development by scaffolding PKC to the Z-disk region. May play a role
    in the regulation of cardiomyocyte expansion. Overexpression promotes the development of heart hypertrophy.
    Contributes to the regulation of dendritic spine morphogenesis in neurons. May restrain postsynaptic growth of
    excitatory synapses (By similarity)

    miRNA
    Products:            		miRTarBase miRNAs that target PDLIM5:
    hsa-mir-155 (MIRT001527)

    OriGene 3'-UTR Clone (see all 4): PDLIM5
    Browse MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat PDLIM5
    8/49 QIAGEN miScript miRNA Assays for microRNAs that regulate PDLIM5 (see all 49):
    hsa-miR-142-5p hsa-miR-4291 hsa-miR-520e hsa-miR-302d hsa-miR-1321 hsa-miR-106a hsa-miR-513a-5p hsa-miR-486-3p
    SwitchGear 3'UTR luciferase reporter plasmid: PDLIM5 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for PDLIM5 (see all 7)
    OriGene shRNA RFP: PDLIM5
    OriGene siRNA: PDLIM5
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat PDLIM5

    Gene Editing
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    Clone
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    Browse Sino Biological Human cDNA Clones
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PDLIM5 

    Cell Line
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    Search LifeMap BioReagents cell lines for PDLIM5

    In Situ Assay
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    Gene Ontology (GO): 5/6 molecular function terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003779actin binding ISS--
    GO:0005080protein kinase C binding ISS--
    GO:0005515protein binding ----
    GO:0008270zinc ion binding IEA--
    GO:0042805actinin binding ISS--


    PDLIM5 for ontologies           About GeneDecksing


    3 GenomeRNAi human phenotypes for PDLIM5:
     G0/1 arrest  Increased G1 DNA content  Synthetic lethal with imatinib 

    Animal Models:
         Mouse knock-out Pdlim5tm1.1Chen for PDLIM5
         4 MGI mutant phenotypes (inferred from 2 alleles) (MGI details for Pdlim5):
     cardiovascular system  mortality/aging  muscle  reproductive system 

    PDLIM5 for phenotypes           About GeneDecksing


    Pathways & Interactions
    for PDLIM5 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for PDLIM5

    STRING Interaction Network Preview (showing 5 interactants - click image to see 14)

    5/17 Interacting proteins for PDLIM5 (Q96HC42, 3 ENSP000003217464) via UniProtKB, MINT, STRING, and/or I2D (see all 17)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GFI1BQ5VTD92, 3, ENSP000003447824MINT-2868588 I2D: score=3 STRING: ENSP00000344782
    CACNA1BQ009753, ENSP000002775494I2D: score=3 STRING: ENSP00000277549
    PRKCBP057713, ENSP000003053554I2D: score=3 STRING: ENSP00000305355
    ACTBP607093, ENSP000003499604I2D: score=2 STRING: ENSP00000349960
    PRKCGP051293, ENSP000002634314I2D: score=1 STRING: ENSP00000263431
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0051963regulation of synapse assembly ISS--
    GO:0061001regulation of dendritic spine morphogenesis ISS--


    PDLIM5 for ontologies           About GeneDecksing



    Drugs & Compounds
    for PDLIM5 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    PDLIM5 for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for PDLIM5
    7 Novoseek chemical compound relationships for PDLIM5 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    zinc 43.7 16 7583761 (2), 7938009 (1), 8595880 (1), 16199866 (1) (see all 14)
    tyrosine 24.3 2 19917054 (1), 16331329 (1)
    threonine 6.18 2 9655398 (1), 8906871 (1)
    calcium 0 5 16044170 (1), 18197271 (1), 16595163 (1)
    histidine 0 1 7583761 (1)
    serine 0 2 9655398 (1), 8906871 (1)
    cysteine 0 2 1966549 (1), 7848918 (1)

    Search CenterWatch for drugs/clinical trials and news about PDLIM5 / PDLI5 

    Transcripts
    for PDLIM5 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for PDLIM5 gene (9 alternative transcripts): 
    NM_001011513.3  NM_001011515.2  NM_001011516.2  NM_001256425.1  NM_001256426.1  NM_001256427.1  NM_001256428.1  NM_001256429.1  
    NM_006457.4  

    Unigene Clusters for PDLIM5:

    PDZ and LIM domain 5
    Hs.480311  [show with all ESTs], Hs.732677  [show with all ESTs]
    Unigene Representative Sequences: NM_001256426, AK027217
    18/23 Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 23):
    ENST00000359265 ENST00000317968(uc003hti.3 uc011cdy.2) ENST00000514830
    ENST00000512274 ENST00000509333 ENST00000503974 ENST00000504489 ENST00000508216
    ENST00000514743 ENST00000511767 ENST00000510099 ENST00000509357 ENST00000513341
    ENST00000508531 ENST00000511586 ENST00000380176 ENST00000506632 ENST00000437932(uc011cdx.1 uc003hth.3 uc003htj.3 uc003htk.3 uc003htl.3)


    miRNA
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    Browse OriGene MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat PDLIM5
    8/49 QIAGEN miScript miRNA Assays for microRNAs that regulate PDLIM5 (see all 49):
    hsa-miR-142-5p hsa-miR-4291 hsa-miR-520e hsa-miR-302d hsa-miR-1321 hsa-miR-106a hsa-miR-513a-5p hsa-miR-486-3p
    SwitchGear 3'UTR luciferase reporter plasmid: PDLIM5 3' UTR sequence
    Inhib. RNA
    Products:             		Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for PDLIM5 (see all 7)
    OriGene shRNA RFP: PDLIM5
    OriGene siRNA: PDLIM5
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat PDLIM5
    Clone
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    OriGene custom cloning services – gene synthesis, subcloning, mutagenesis, variant library, vector shuttling 
    GenScript: all cDNA clones in your preferred vector (see all 4): PDLIM5 (NM_006457)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for PDLIM5
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PDLIM5 
    Primer
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PDLIM5

    Additional cDNA sequence: AK027217.1 

    24/39 DOTS entries (see all 39):

    DT.100782824  DT.100782822  DT.100000841  DT.312272  DT.95087086  DT.100793081  DT.87016811  DT.87016812 
    DT.218133  DT.95342119  DT.95342122  DT.75190383  DT.100782823  DT.100657973  DT.92450691  DT.121233876 
    DT.100840029  DT.75184298  DT.121233927  DT.121234016  DT.100771909  DT.97800563  DT.121234008  DT.75137580 

    24/536 AceView cDNA sequences (see all 536):

    AU098787 CR608778 AI142437 AW160480 AA045870 BP374075 F09265 BX095663 
    AA669523 BU733980 AA284971 BM852658 CR610626 AI201986 AI445592 BQ029539 
    BM550115 AI444971 AL691773 BU618599 AL599593 F33877 AA133788 BM670741 

    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for PDLIM5 (see all 6)    About this scheme

    ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13
    SP1:                                      -                                                                     
    SP2:                                      -                                                                     
    SP3:                                      -     -                                                               
    SP4:                          -           -                                                                     
    SP5:                                                                                                            


    ECgene alternative splicing isoforms for PDLIM5

    Expression
    for PDLIM5 gene

    (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 GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    PDLIM5 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: CTCATTCTGT

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    PDLIM5 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    4 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    Gut TubeMidgutMidgut Endoderm CellsEndoderm
    BrainHypothalamusBrain
    Gut TubeMidgutGut Tube
    Neural TubeDiencephalic Ventricular ZoneNeural Tube
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See PDLIM5 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for PDLIM5

    SOURCE GeneReport for Unigene clusters: Hs.480311 Hs.732677

    UniProtKB/Swiss-Prot: PDLI5_HUMAN, Q96HC4
    Tissue specificity: Heart and skeletal muscle specific. Expression is commonly increased in the brain of patients with
    bipolar disorder, schizophrenia, and major depression

        SABiosciences Custom PCR Arrays for PDLIM5
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    In Situ
    Assay Products:     
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    Orthologs
    for PDLIM5 gene

    (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 PDLIM5 gene from 6/22 species (see all 22)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves PDLIM51 PDZ and LIM domain 5 75.26(n)
    72.87(a)    		   422699  NM_001031149.1  NP_001026320.1 
    lizard
    (Anolis carolinensis)    		 Reptilia PDLIM56
    		 --
    		 71(a)
    		 1 ↔ 1
    		 5(49031360-49143740)
    African clawed frog
    (Xenopus laevis)    		 Amphibia Xl.23562 Xenopus laevis transcribed sequence with moderate similarity more 83.03(n)    BG730843.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii zgc561162 hypothetical protein MGC56116 76.09(n)   393165  BC045922.1 
    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
    		 ALP/Enigma encoding family member (alp-1)
    		 9(a)
    		 1 → many
    		 IV(8852485-8862474)


    ENSEMBL Gene Tree for PDLIM5 (if available)
    TreeFam Gene Tree for PDLIM5 (if available) 

    Paralogs
    for PDLIM5 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for PDLIM5 gene
    ABLIM32  LIMS12  LIMS3L2  FHL52  LDB32  LPXN2  ABLIM22  ENSG000002572072  
    LIMS22  FHL22  ABLIM12  PDLIM72  EPB492  FHL32  FHL12  TGFB1I12  
    LIMS32  PXN2  
    18/25 SIMAP similar genes for PDLIM5 using alignment to 11 protein entries:     PDLI5_HUMAN (see all proteins) (see all similar genes):
    PDLIM3    PDLIM2    PDLIM7    SYNPO2    LDB3    LIM
    LIMS1    CRIP1    PXN    ABLIM3    CRIP2    LHX2
    SCRIB    DKFZp686P2249    LMO3    LHX3    ZYX    AJUBA

    PDLIM5 for paralogs           About GeneDecksing



    Genomic Variants
    for PDLIM5 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 6 variations for PDLIM5
         6 Indels: 42325 46722 98801 27747 40661 62232
    Human Gene Mutation Database (HGMD): PDLIM5
    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing PDLIM5
    DNA2.0 Custom Variant and Variant Library Synthesis for PDLIM5

    Disorders / Diseases
    for PDLIM5 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    PDLIM5 for disorders           About GeneDecksing

    OMIM gene information: 605904    OMIM disorders: --

    20/34 diseases for PDLIM5 (see all 34):    About MalaCards
    nail-patella syndrome    ventricular septal defect    facioscapulohumeral muscular dystrophy    major depressive disorder
    muscular dystrophy    short stature    barth syndrome    esophageal squamous cell carcinoma
    squamous cell carcinoma    female breast cancer    bipolar disorder    myopia
    mental disorders    acute leukemia    hepatocellular carcinoma    breast cancer
    genetic disease    hepatitis b    prostate cancer    leukemia

    10/16 Novoseek disease relationships for PDLIM5 gene (see all 16)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    nail-patella syndrome 56.6 2 17570941 (1), 11978876 (1)
    t-all 48.2 2 8078932 (1)
    bipolar disorder 37.7 26 19448850 (6), 16044170 (5), 15362566 (2), 18496210 (2) (see all 7)
    leukemia t-cell 24.2 1 7957052 (1)
    breast cancer 12.2 10 19117995 (2), 17956604 (1), 20461080 (1), 12571245 (1) (see all 7)
    myopia 11.2 9 17101130 (4), 15949800 (1), 17924678 (1)
    cancer 9.85 6 16314921 (1), 17332327 (1), 19307596 (1), 19917054 (1) (see all 5)
    acute leukemia 7.77 1 9103675 (1)
    major depression 4.42 8 18197271 (2), 16595163 (2), 16044170 (1)
    tumors 1.71 4 19139564 (1), 18957717 (1), 18942711 (1)

    Genetic Association Database (GAD): PDLIM5
    Human Genome Epidemiology (HuGE) Navigator: PDLIM5 (18 documents)

    Export disorders for PDLIM5 gene to outside databases

    Publications
    for PDLIM5 gene

    (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)
    About This Section

    PubMed articles for PDLIM5 gene, integrated from 9 sources (see all 206):
    (articles sorted by number of sources associating them with PDLIM5)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Gene expression and association analyses of LIM (PDLIM5) in bipolar disorder and schizophrenia. (PubMed id 16044170)1, 2, 4, 9 Kato T.... Yoshikawa T. (2005)
    2. A polymorphism in the PDLIM5 gene associated with gene expression and Schizophrenia. (PubMed id 16213469)1, 2, 4 Horiuchi Y.... Arinami T. (2006)
    3. Cloning and identification of a novel human gene PDLIM5, a homolog of AD-associated neuronal thread protein (AD7c-NTP). (PubMed id 15346770)1, 2, 3 Wu M....Mao Y. (2004)
    4. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    5. Suppression subtractive hybridization and expression profiling identifies a unique set of genes overexpressed in non-small-cell lung cancer. (PubMed id 15334068)1, 2 Petroziello J.... Carter P. (2004)
    6. 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. (2004)
    7. Isolation, tissue expression, and chromosomal assignment of a human LIM protein gene, showing homology to rat enigma homologue (ENH). (PubMed id 10429367)1, 2 Ueki N.... Muramatsu M. (1999)
    8. Positive association between the PDLIM5 gene and bipolar disorder in the Chinese Han population. (PubMed id 19448850)1, 9 Zhao T....Yu L. (2009)
    9. Positive association between PDLIM5 and schizophrenia in the Chinese Han population. (PubMed id 18021463)1, 9 Li C....He L. (2008)
    10. A case-control association study of the PDLIM5 gene and bipolar disorder in a Sardinian sample. (PubMed id 18496210)1, 9 Squassina A....Del Zompo M. (2008)

    External Searches for PDLIM5 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing PDLIM5 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 10611 HGNC: 17468 AceView: LIM Ensembl:ENSG00000163110 euGenes: HUgn10611
    ECgene: PDLIM5 H-InvDB: PDLIM5

    Other Databases showing PDLIM5 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing PDLIM5 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for PDLIM5 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for PDLIM5 Genetics and Cytogenetics in Oncology and Haematology

    Intellectual Property
    for PDLIM5 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for PDLIM5 gene:
    Search GeneIP for patents involving PDLIM5

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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    About This Section

     
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