Set Analyses:
Advanced Search

Advanced Search

 
Search By
Section (entire)
for


Category   Symbol Source: HGNC EntrezGene Ensembl
GIFtS

Search by expression pattern Search by expression pattern



PDLIM5 Gene

protein-coding   GIFtS: 58

GC04P091110
PDZ and LIM domain 5
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Products    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases & Descriptions
PDZ and LIM domain 51 2     OTTHUMP000002193072
ENH2 3 5     enigma-like LIM domain protein2
LIM1 2     OTTHUMP000002193092
Enigma-like PDZ and LIM domains protein2 3     OTTHUMP000002193102
Enigma homolog2 3     PDZ and LIM domain protein 52
Enh1     ENH12

External Ids:    HGNC: 174681   Entrez Gene: 106112   Ensembl: ENSG000001631107   UniProtKB: Q96HC43   

Export aliases for PDLIM5 gene to outside databases

Previous GC identifers: GC04P095731 GC04P095592 GC04P095373


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

Entrez Gene summary for PDLIM5:
The protein encoded by this gene is a LIM domain protein. LIM domains are cysteine-rich double zinc fingers composed of
50 to 60 amino acids that are involved in protein-protein interactions. LIM domain-containing proteins are scaffolds
for the formation of multiprotein complexes. The proteins are involved in cytoskeleton organization, cell lineage
specification, organ development, and oncogenesis. The encoded protein is also a member of the Enigma class of
proteins, a family of proteins that possess a 100-amino acid PDZ domain in the N terminus and 1 to 3 LIM domains in
the C terminus. Multiple transcript variants encoding different isoforms have been found for this gene, although not
all of them have been fully characterized. (provided by RefSeq)

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

(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 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the PDLIM5 gene promoter:
         CUTL1   NF-kappaB1   SRF   Sox9   NF-kappaB   MEF-2A   LUN-1   TBP   TFIID   PPAR-gamma1   
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for PDLIM5

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for 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 gene densities for chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P091110:  view genomic region     (about GC identifiers)

Start:
91,110,773 bp from pter
End:
91,326,815 bp from pter
Size:
216,043 bases
Orientation:
plus strand

1 alternative location:
Chr4+ 95,373,037-95,589,377     
RefSeq DNA sequence:
NC_000004.11  NT_016354.19  

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section

UniProtKB/Swiss-Prot: PDLI5_HUMAN, Q96HC4 (See protein sequence)
Recommended Name: PDZ and LIM domain protein 5  
Size: 596 amino acids; 64002 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)
PDB structure from and Proteopedia :
2DAR (3D)    2UZC (3D)    
Secondary accessions: A8K6F9 O60705 Q5UW38 Q8WVK0
Alternative splicing: 3 isoforms:  Q96HC4-1   Q96HC4-2   Q96HC4-3   

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

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins (4 alternative transcripts): 
    NP_001011513.2  NP_001011515.1  NP_001011516.1  NP_006448.3  


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


    Human Recombinant Proteins 
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    OriGene Purified Protein: PDLIM5
    OriGene Protein Over-expression Lysate: PDLIM5
    GenScript Custom Purified and Recombinant Proteins Services for PDLIM5 
    Novus Biologicals Protein for PDLIM5
    Novus Biologicals Lysate for PDLIM5
    Browse Sino Biological Recombinant Proteins
    Browse ProSpec Recombinant Proteins

    5/11 Gene Ontology (GO) cellular component terms (GO ID links to tree view) (see all 11):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005624 membrane fraction ISS--
    GO:0005737 cytoplasm IEA--
    GO:0005829 cytosol ISS--
    GO:0005886 plasma membrane IEA--
    GO:0014069 postsynaptic density ISS--
    About this table

    PDLIM5 for ontologies           About GeneDecksing



    Antibodies for PDLIM5: 
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for PDLIM5
    Browse R&D Systems for Antibodies
    Browse OriGene Antibodies
    GenScript Custom Superior Antibodies Services for PDLIM5 
    Novus Biologicals Antibodies for PDLIM5
    Browse antibodies at Epitomics

    Assays for PDLIM5: 
    Browse Kits and Assays available from Millipore
    Browse ELISAs at Sigma-Aldrich
    OriGene Custom Immunoassay Development 
    Browse OriGene Fluorogenic Cell Assay Kits 
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for PDLIM5 
    Browse Enzo Life Sciences for kits & assays
    Uscn ELISAs and CLIAs for PDLIM5 


    (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/DHR/GLGF
     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


    (According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
    About This Section

    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)

    Inhib.
    RNA:
        
    Browse for Gene Knock-down Tools from Millipore
    Browse Nano Scale siRNA at Sigma-Aldrich
    Sigma-Aldrich esiRNA and siRNA for PDLIM5
    Sigma-Aldrich shRNA for PDLIM5
    OriGene 29mer shRNA kits in GFP-retroviral vector (see all 8): PDLIM5
    OriGene shRNA RFP (see all 8): PDLIM5
    OriGene basic RS shRNA (see all 8): PDLIM5
    OriGene siRNA (see all 7): PDLIM5
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of PDLIM5 
    miRNA:Sigma-Aldrich microRNA Mimics for PDLIM5
    Browse microRNA target validation systems at Sigma-Aldrich 
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of PDLIM5 
    8/20 SABiosciences Assays for microRNAs that regulate PDLIM5 (see all 20):
    hsa-miR-607 hsa-miR-1321 hsa-miR-495 hsa-miR-513a-5p hsa-miR-106a hsa-miR-374a hsa-miR-944 hsa-miR-340

    Gene
    Editing:
    Browse CompoZr Knockout ZFN at Sigma-Aldrich 

    Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
    Browse iPSC Reprogramming Factors at Sigma-Aldrich
    OriGene GFP tagged cDNA clones in CMV expression vector (see all 4): PDLIM5
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 4): PDLIM5
    OriGene untagged cDNA clones in CMV expression vector (see all 5): PDLIM5
    OriGene 3'-UTR clone (see all 4): PDLIM5 
    Browse MicroRNA Expression Plasmids 
    GenScript cDNA clones with any tag delivered in your preferred vector (see all 2): PDLIM5 
    Browse Sino Biological Human cDNA Clones

    Cell
    Lines:
      
    GenScript Custom overexpressing Cell Line Services for PDLIM5 

    5/7 Gene Ontology (GO) molecular function terms (GO ID links to tree view) (see all 7):

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

    PDLIM5 for ontologies           About GeneDecksing


    (Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
    About This Section

        SABiosciences Custom Pathway-Focused PCR Arrays for PDLIM5 

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for PDLIM5

    2 Interacting proteins for PDLIM5 (Q96HC42) via UniProtKB, MINT, and/or STRING
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GFI1BQ5VTD92MINT-2868588
    --Q9WMX22MINT-7047658
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0051963 regulation of synaptogenesis ISS--
    GO:0061001 regulation of dendritic spine morphogenesis ISS--
    About this table

    PDLIM5 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    PDLIM5 for compounds           About GeneDecksing

    Browse Small Molecules at Sigma-Aldrich
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for PDLIM5
    7 Novoseek chemical compound relationships for PDLIM5 gene
    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)
    About this table



    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Millipore,
    siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
    Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
    About This Section

    Inhib.
    RNA:
         
    Browse for Gene Knock-down Tools from Millipore
    Browse Nano Scale siRNA at Sigma-Aldrich
    Sigma-Aldrich esiRNA and siRNA for PDLIM5
    Sigma-Aldrich shRNA for PDLIM5
    OriGene 29mer shRNA kits in GFP-retroviral vector (see all 8): PDLIM5
    OriGene shRNA RFP (see all 8): PDLIM5
    OriGene basic RS shRNA (see all 8): PDLIM5
    OriGene siRNA (see all 7): PDLIM5
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of PDLIM5 
    miRNA: Sigma-Aldrich microRNA Mimics for PDLIM5
    Browse microRNA target validation systems at Sigma-Aldrich 
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of PDLIM5 
    8/20 SABiosciences Assays for microRNAs that regulate PDLIM5 (see all 20):
    hsa-miR-607 hsa-miR-1321 hsa-miR-495 hsa-miR-513a-5p hsa-miR-106a hsa-miR-374a hsa-miR-944 hsa-miR-340
    Clones: Browse FLAG tag genes at Sigma-Aldrich
    OriGene GFP tagged cDNA clones in CMV expression vector (see all 4): PDLIM5
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 4): PDLIM5
    OriGene untagged cDNA clones in CMV expression vector (see all 5): PDLIM5
    OriGene 3'-UTR Clone (see all 4): PDLIM5 
    Browse OriGene MicroRNA Expression Plasmids 
    GenScript cDNA clones with any tag delivered in your preferred vector (see all 2): PDLIM5 
    Primers: OriGene genome-wide validated SYBR primer pairs: PDLIM5
    Browse OriGene validated miRNA SYBR primer pairs 
    SABiosciences RT2 qPCR Primer Assay for PDLIM5: PPH00371A

    REFSEQ mRNAs for PDLIM5 gene (4 alternative transcripts): 

    NM_001011513.2  NM_001011515.1  NM_001011516.1  NM_006457.3  

    Additional cDNA sequence: 

    AB209531.1 AF061258.1 AK027217.1 AK129886.1 AK291624.1 AK291898.1 AK296980.1 AK304125.1 
    AL049969.1 AL832157.1 AL832686.1 AL833151.1 AL833438.1 AL833439.1 AY345240.1 AY598328.1 
    BC008741.2 BC017902.1 BC026029.2 BT007328.1 BX648059.1 CR608778.1 CR610626.1 

    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):

    AJ711023 AA056648 AW160480 CB053686 AI201986 BE275787 BQ029539 BM852632 
    BU194564 AL602574 AA284971 AA669523 CR608778 BF002744 AU098787 AI142437 
    AI684982 AA112776 BQ026748 AI341656 AA253484 AA045870 BU733980 BM843638 

    highest scoring ESTs for PDLIM5:

    AF061258 AA249493 AA366415 AA508804 AA631868 AA644237 AA664480 AA703347 AI127923 AI240872 

    Unigene Cluster for PDLIM5:

    PDZ and LIM domain 5
    Hs.480311  [show with all ESTs]
    Unigene Representative Sequence: NM_006457


    GeneLoc Exon Structure

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

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

    About this scheme

    ECgene alternative splicing isoforms for PDLIM5
    18/21 Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 21):
    ENST00000450793 ENST00000511767 ENST00000437932(uc011cdx.1 uc003hth.2 uc003htj.2 uc003htk.2 uc003htl.2)
    ENST00000510099 ENST00000512274 ENST00000380180(uc003htg.2) ENST00000513341
    ENST00000506632 ENST00000511586 ENST00000514830 ENST00000318007(uc003htf.2)
    ENST00000504489 ENST00000508216 ENST00000514743 ENST00000503974 ENST00000509333
    ENST00000380176 ENST00000508531

    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Primers from OriGene and/or SABiosciences )
    About This Section

    PDLIM5 expression in normal and diseased human tissues

    1  / 2  / 3

    25 probe-sets matching PDLIM5 gene

    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    40060_r_at2, 3 U95-A 1 1.00 1.00 0.63 0.60 AF061258 1.00 1.00 1.00 1
    37366_at2, 3 U95-A 1 1.00 1.00 0.46 1.44 AL049969 0.80 1.00 0.91 1
    47108_at2, 3 U95-B 1 0.94 1.00 0.93 1.04 AA196325 0.60 1.00 0.82 1
    40059_r_at2, 3 U95-A 1 0.88 1.00 0.96 0.71 AI341656 0.80 1.00 0.91 1
    40058_s_at2, 3 U95-A 1 0.62 1.00 0.95 1.17 AI341656 0.80 1.00 0.91 1
    80698_at2, 3 U95-E 1 0.44 1.00 0.95 1.21 AI051390 0.60 1.00 0.82 1
    75847_r_at*2, 3 U95-D 1 -- -- 0.12 0.30 C75620 0.40 1.00 0.76 1
    216804_s_at2, 3 U133-A 1 1.00 1.00 -- -- AK027217 0.60 1.00 0.82 1
    211681_s_at2, 3 U133-A 1 1.00 1.00 -- -- AF116705 0.20 1.00 0.72 1
    203242_s_at2, 3 U133-A 1 1.00 1.00 -- -- BG054550 0.80 1.00 0.91 1
    203243_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_006457 0.60 1.00 0.82 1
    212412_at2, 3 U133-A 1 1.00 1.00 -- -- AV715767 0.60 1.00 0.82 1
    213684_s_at2, 3 U133-A 1 0.91 1.00 -- -- BF671400 0.40 1.00 0.76 1
    221994_at2, 3 U133-A 1 0.82 1.00 -- -- AA196325 0.60 1.00 0.82 1
    216803_at2, 3 U133-A 1 0.36 1.00 -- -- AK027217 0.60 1.00 0.82 1
    211680_at*2, 3 U133-A NULL 0.00 0.00 -- -- AF116705 0.20 1.00 0.72 1
    216804_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    211681_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    203242_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    203243_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    212412_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    213684_s_at2 U133Plus2 1 0.91 1.00 -- -- -- -- -- -- --
    221994_at2 U133Plus2 1 0.82 1.00 -- -- -- -- -- -- --
    216803_at2 U133Plus2 1 0.36 1.00 -- -- -- -- -- -- --
    211680_at*2 U133Plus2 NULL 0.00 0.00 -- -- -- -- -- -- --
    About this table

    PDLIM5 for expression           About GeneDecksing

    Data from Genenote  (Publications) and GNF BioGPS
        About these images
    PDLIM5 gene expression
    PDLIM5 gene electronic northern expression
    PDLIM5 gene sage expression
    About these images

    CGAP SAGE TAG: TACTTGGGAG

    SOURCE GeneReport for Unigene cluster: Hs.480311

    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

    Primers: OriGene genome-wide validated SYBR primer pairs: PDLIM5
    Browse OriGene validated miRNA SYBR primer pairs 
    SABiosciences RT2 qPCR Primer Assay for PDLIM5: PPH00371A
        SABiosciences Custom PCR Arrays for PDLIM5 


    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section

    Orthologs for PDLIM5 gene from 5/8 species (see all 8)
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    PDLIM51   -- PDZ and LIM domain 5 92.06(n)
    91.78(a)
    478482  XM_845345.1  XP_850438.1 
    chimpanzee
    (Pan troglodytes)
    PDLIM51   -- PDZ and LIM domain 5 99.44(n)
    98.99(a)
    461385  XM_001164561.1  XP_001164561.1 
    rat
    (Rattus norvegicus)
    Pdlim51   -- PDZ and LIM domain 5 86.58(n)
    88.83(a)
    64353  NM_053326.1  NP_445778.1 
    mouse
    (Mus musculus)
    Pdlim51 , 5 3 (66.69 cM)5
    PDZ and LIM domain 51, 5 85.79(n)1
    88.16(a)1
    563761  NM_019808.11  NP_062782.11 
     AA0618065  AA5127945  (see all 30)
    chicken
    (Gallus gallus)
    RCJMB04_18a151   -- PDZ and LIM domain 5 75.31(n)
    73.04(a)
    422699  NM_001031149.1  NP_001026320.1 
    About this table        Species with no ortholog for PDLIM5

    ENSEMBL Gene Tree for PDLIM5 (if available)

    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section
    Paralogs for PDLIM5 gene
    LDB32  PDLIM72  

    PDLIM5 for paralogs           About GeneDecksing



    (SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
    About This Section

    10/2062 NCBI SNPs in PDLIM5 are shown (see all 2062)
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidChr 4 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ----------
    rs39431,2
    C,F,A,H,95588075(-) GGAAAT/CAGAGA 2 -- ut3118Minor allele frequency- C:0.45MN NS EA NA WA 964
    rs72851,2
    C,F,A,95589337(+) AATGTG/ACACAT 2 -- ut3113Minor allele frequency- A:0.16MN NS EA NA WA 1234
    rs105901,2
    C,F,95586279(+) CCTTGT/CGCTAA 2 -- ut3116Minor allele frequency- C:0.36MN NS EA NA 1096
    rs122941,2
    C,95588674(-) aacctG/Atgcac 2 -- ut317Minor allele frequency- A:0.24NA EA 170
    rs140821,2
    C,F,A,95586224(+) TTTCTG/ATTCAT 2 -- ut3120Minor allele frequency- A:0.44MN NS EA NA WA 1334
    rs6998611,2
    C,F,O,A,H,95420163(+) TGGAAA/GTATTT 3 -- int112Minor allele frequency- G:0.14NS EA NA WA 592
    rs7665201,2
    C,F,O,A,95445791(-) TATAAC/TTTGAG 3 -- int114Minor allele frequency- N:0.00NS EA NA WA 706
    rs7749821,2
    C,F,O,A,95410364(+) CAAGTG/AGCTGT 3 -- int122Minor allele frequency- A:0.28NS EA NA WA 2978
    rs7749831,2
    C,F,A,95410259(+) GCCCTA/GGAAGA 3 -- int119Minor allele frequency- G:0.04NA EA NS WA 1197
    rs7749841,2
    C,F,O,95409567(-) GTGACT/CAAAAA 3 -- int116Minor allele frequency- C:0.46NA NS EA 1084
    About this table

    HapMap Linkage Disequilibrium images for PDLIM5 (up to first 250kb)
    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

    QIAGEN SeqTarget long-range PCR primers for resequencing PDLIM5 

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    PDLIM5 for disorders           About GeneDecksing

    OMIM: 605904

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

    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)
    About this table

    Human Gene Mutation Database (HGMD): PDLIM5
    Genetic Association Database (GAD): PDLIM5
    Human Genome Epidemiology (HuGE) Navigator: PDLIM5 (13 documents)

    Export disorders and mutations for PDLIM5 gene to outside databases

    (Possibly Related Articles in Doctor's Guide)
    About This Section
      --

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6UniProtKB/TrEMBL, and/or 7Novoseek)
    About This Section

    10/192 PubMed articles for PDLIM5 gene, integrated from 7 sources (see all 192):
    (articles sorted by number of sources associating them with PDLIM5)
    1. Gene expression and association analyses of LIM (PDLIM5) in bipolar disorder and schizophrenia. (PubMed id 16044170)1, 2, 4, 7 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. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    4. 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)
    5. 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)
    6. Cloning and identification of a novel human gene PDLIM5, a homolog of AD-associated neuronal thread protein (AD7c-NTP). (PubMed id 15346770)1, 3 Wu M....Mao Y. (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, 7 Zhao T....Yu L. (2009)
    9. Positive association between PDLIM5 and schizophrenia in the Chinese Han population. (PubMed id 18021463)1, 7 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, 7 Squassina A....Del Zompo M. (2008)

    (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)

    (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

    (According to HUGE)
    About This Section
      --

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

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from XenneX, 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



    (Antibodies, recombinant proteins, and assays by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
    Clones available from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, PCR Arrays from SABiosciences, Drugs and/or compounds by Sigma-Aldrich, Tocris Bioscience, and/or Enzo Life Sciences)
    About This Section

     Millipore Custom Antibody & Bulk Services
     Millipore Preclinical / Clinical Development Services
     Millipore Immunoassay Services
     Millipore Target Screening & Profiling Services

     Predesigned and custom siRNAs for PDLIM5 Antibodies for PDLIM5
     Super-pooled esiRNAs for PDLIM5 Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for PDLIM5 microRNA Mimics for PDLIM5
     "Your Favorite Gene" Pathways and Molecular Interaction Networks Browse Nano Scale siRNA at Sigma-Aldrich
     Browse iPSC Reprogramming Factors at Sigma-Aldrich Browse small molecules at Sigma-Aldrich
     Browse FLAG tag genes at Sigma-Aldrich Browse ELISAs at Sigma-Aldrich
     Browse microRNA Target Validation Systems at Sigma-Aldrich Browse CompoZr Knockout ZFN at Sigma-Aldrich
    feedback
      
     Antibodies   Cell Culture Products  
     ELISAs   Flow Cytometry Kits  
     Primer Pairs   Kinase Activity Assays/Reagents  
     ELISpot Kits/Development Modules   TFB/Immunoprecipitation Assays  
     Apoptosis Detection Kits/Reagents   Protease Activity Assays/Reagents  
     DNA Damage/Repair Kits/Reagents   Multiplex/Array Assay Kits/Reagents  
     Cell Selection/Detection Kits/Reagents   ELISA/Assay Development Kits/Reagents  
     Phosphatase Activity Assays/Reagents   Recombinant/Natural Proteins  
     Tagged/untagged cDNA clones
     Validated SYBR primer pairs
     Purified proteins from HEK293T cells
     Lysates
     Western blot validated antibodies
     shRNA in GFP-retroviral vector
     siRNA
     Custom Immunoassay Development
     Fluorogenic Cell Assay Kits
     miRNA Primers for qPCR Assays
     3' UTR Clones for miRNA Target Studies
     miRNA Expression Plasmids

     
     
     QIAGEN Custom miScript Target Protector blocks miRNA-binding site of PDLIM5
     SeqTarget long-range PCR primers for resequencing PDLIM5
     QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for PDLIM5
     QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of PDLIM5
     GenScript Custom Purified and Recombinant Proteins Services for PDLIM5 GenScript cDNA clones with any tag delivered in your preferred vector for PDLIM5
     GenScript Custom Assay Services for PDLIM5 GenScript Custom Superior Antibodies Services for PDLIM5
     GenScript Custom overexpressing Cell Line Services for PDLIM5 CloneReady with Over 120,000 Genes
     Gene Synthesis: Any Gene in Any Vector Vector-based siRNA and miRNA, Ready for Transfection
     Gene Mutant Library, Variants up to 10^11 Plasmid Preparation
     Custom Peptide Services
     Search for Antibodies & Assays

     Regulatory tfbs in PDLIM5 promoter
     Search Chromatin IP Primers for PDLIM5
     RT2 qPCR Primer Assay for PDLIM5
     GNC Network for PDLIM5
     Assays for microRNAs that regulate PDLIM5
     SABiosciences Custom PCR Arrays for PDLIM5
     Search Tocris compounds for PDLIM5
     Browse Sino Biological Proteins and Antibodies
     Browse Sino Biological cDNA Clones
     Antibodies/Proteins Production Services
     Rabbit Monoclonal Antibody Platform
     Bulk Purchasing
     Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies
     Novus Tissue Slides
     Antibodies for PDLIM5
     Proteins for PDLIM5
     Lysates for PDLIM5
     Browse antibodies at Epitomics
     Browse ProSpec Recombinant Proteins

     ELISAs and CLIAs for PDLIM5
           

    GeneCards Homepage - Last full update: 31 Dec 2010 - Incremental updates: 9 Jan 2011 , 10 Jan 2011

    View Random Gene

    Category
    GIFtS Group
    The GeneCards human gene database gene index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


    Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

    PDLIM5 gene at Home site.
    hostname: www-ab3 db genecards_305 index build: 81e solr: 1.4