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

FHL3 Gene

protein-coding   GIFtS: 55
GCID: GC01M038462

Four And A Half LIM Domains 3

  See related diseases
at  

(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
Four And A Half LIM Domains 31 2     SLIM-22 3
SLIM22 3 5     Four And A Half LIM Domains Protein 32
Skeletal Muscle LIM-Protein 22 3     LIM-Only Protein FHL32
FHL-32 3     

External Ids:    HGNC: 37041   Entrez Gene: 22752   Ensembl: ENSG000001833867   OMIM: 6027905   UniProtKB: Q136433   

Export aliases for FHL3 gene to outside databases

Previous GC identifers: GC01P038251 GC01U900008 GC01M037925 GC01M037875 GC01M038131 GC01M038235 GC01M036580


(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 FHL3 Gene:
The protein encoded by this gene is a member of a family of proteins containing a four-and-a-half LIM domain,
which is a highly conserved double zinc finger motif. The encoded protein has been shown to interact with the
cancer developmental regulators SMAD2, SMAD3, and SMAD4, the skeletal muscle myogenesis protein MyoD, and the
high-affinity IgE beta chain regulator MZF-1. This protein may be involved in tumor suppression, repression of
MyoD expression, and repression of IgE receptor expression. Two transcript variants encoding different isoforms
have been found for this gene. (provided by RefSeq, Aug 2011)

GeneCards Summary for FHL3 Gene: 
FHL3 (four and a half LIM domains 3) is a protein-coding gene. Diseases associated with FHL3 include hemophagocytic lymphohistiocytosis, and hypoxia. GO annotations related to this gene include actin binding and zinc ion binding. An important paralog of this gene is ABLIM3.

Gene Wiki entry for FHL3 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NT_032977.9  NC_018912.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the FHL3 gene promoter:
         E2F-3a   E2F-4   E2F-5   STAT1   E2F-1   STAT1beta   MyoD   E2F-2   STAT1alpha   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for FHL3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat FHL3


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

Entrez Gene cytogenetic band: 1p34   Ensembl cytogenetic band:  1p34.3   HGNC cytogenetic band: 1p34.3

FHL3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FHL3 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M038462:  view genomic region     (about GC identifiers)

Start:
38,462,442 bp from pter      End:
38,471,278 bp from pter
Size:
8,837 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: FHL3_HUMAN, Q13643 (See protein sequence)
Recommended Name: Four and a half LIM domains protein 3  
Size: 280 amino acids; 31192 Da
3 PDB 3D structures from and Proteopedia for FHL3:
1WYH (3D)        2CUQ (3D)        2EHE (3D)    
Secondary accessions: D3DPT6 Q6I9T0 Q9BVA2

Explore the universe of human proteins at neXtProt for FHL3: NX_Q13643

Explore proteomics data for FHL3 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q13643

  • FHL3 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    FHL3 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001230807.1  NP_004459.2  

    ENSEMBL proteins: 
     ENSP00000362107  

    Human Recombinant Protein Products for FHL3: 
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    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for FHL3 

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001725stress fiber IEA--
    GO:0005634nucleus IEA--
    GO:0030018Z disc IEA--

    FHL3 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro protein domain:
     IPR001781 Znf_LIM

    Graphical View of Domain Structure for InterPro Entry Q13643

    ProtoNet protein and cluster: Q13643

    1 Blocks protein domain: IPB001781 Zn-binding protein

    UniProtKB/Swiss-Prot: FHL3_HUMAN, Q13643
    Similarity: Contains 4 LIM zinc-binding domains


    FHL3 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:
         Genatlas biochemistry entry for FHL3:
    four and a half LIM domain protein 3,skeletal muscle specific

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003779actin binding IEA--
    GO:0008270zinc ion binding IEA--
         
    FHL3 for ontologies           About GeneDecksing


    Phenotypes:
         3 GenomeRNAi human phenotypes for FHL3:
     Cell cycle / mitosis defect  Decreased Tat-dependent transc  Decreased p24 protein expressi 

    Animal Models:
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    SwitchGear 3'UTR luciferase reporter plasmidFHL3 3' UTR sequence
    Inhib. RNA
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    (Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
    About This Section




    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for FHL3

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

    5/41 Interacting proteins for FHL3 (Q136432, 3 ENSP000003621074) via UniProtKB, MINT, STRING, and/or I2D (see all 41)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CDC42EP1Q005872, 3, ENSP000002490144MINT-67339 I2D: score=5 STRING: ENSP00000249014
    LNX1Q8TBB12, 3, ENSP000002639254MINT-67427 I2D: score=5 STRING: ENSP00000263925
    MED15Q96RN52, 3, ENSP000002632054MINT-67286 I2D: score=5 STRING: ENSP00000263205
    TRIP6Q156542, 3, ENSP000002004574MINT-67806 I2D: score=5 STRING: ENSP00000200457
    FHL2Q141922, 3, ENSP000003229094MINT-16479 MINT-16480 I2D: score=3 STRING: ENSP00000322909
    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:0007517muscle organ development TAS10049693
    GO:0030036actin cytoskeleton organization IEA--

    FHL3 for ontologies           About GeneDecksing



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

    FHL3 for compounds           About GeneDecksing

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

    Browse Tocris compounds for FHL3

    1 Novoseek inferred chemical compound relationship for FHL3 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    zinc 44.5 2 11135358 (1), 16982898 (1)

    Search CenterWatch for drugs/clinical trials and news about FHL3

    (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,
    Conferences by KenesGroup, 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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for FHL3 gene (2 alternative transcripts): 
    NM_001243878.1  NM_004468.4  

    Unigene Cluster for FHL3:

    Four and a half LIM domains 3
    Hs.57687  [show with all ESTs]
    Unigene Representative Sequence: BC011697
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000485803 ENST00000373016(uc001cck.3 uc001ccm.3) ENST00000475084
    ENST00000477194(uc009vvl.2) ENST00000483132
    miRNA
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    hsa-miR-3678-3p hsa-miR-4254 hsa-miR-137 hsa-miR-92a hsa-miR-25 hsa-miR-367 hsa-miR-624* hsa-miR-32
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    Inhib. RNA
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat FHL3

    Additional mRNA sequence: 

    AF133732.1 AK290641.1 AK309179.1 BC001351.2 BC011697.2 BC014501.1 BT007052.1 CR457425.1 
    U60116.2 

    14 DOTS entries:

    DT.114324  DT.95113659  DT.102832178  DT.100701500  DT.121363370  DT.91861669  DT.95113630  DT.92432591 
    DT.95219351  DT.99931972  DT.95071993  DT.97759926  DT.97795201  DT.40113934 

    24/240 AceView cDNA sequences (see all 240):

    AA662492 CR619025 CR623890 BI914364 CR597013 F35278 CR618213 CR599922 
    BM761621 CR604728 BM845115 CR617934 C01729 BM846480 BM843181 CR622019 
    CR613498 AI354386 BM695151 AJ572306 CR592415 CR604590 BI822055 F24520 

    GeneLoc Exon Structure

    5/8 Alternative Splicing Database (ASD) splice patterns (SP) for FHL3 (see all 8)    About this scheme

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


    ECgene alternative splicing isoforms for FHL3

    (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

    FHL3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AGTCAAGCCC
    FHL3 Expression
    About this image


    See FHL3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for FHL3

    SOURCE GeneReport for Unigene cluster: Hs.57687

    UniProtKB/Swiss-Prot: FHL3_HUMAN, Q13643
    Tissue specificity: Expressed only in skeletal muscle

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    In Situ
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    (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 FHL3 gene from 5/12 species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Fhl31 , 5 four and a half LIM domains 31, 5 89.64(n)1
    97.5(a)1
      4 (57.88 cM)5
    142011  NM_010213.31  NP_034343.21 
     1247007015 
    chicken
    (Gallus gallus)
    Aves FHL31 four and a half LIM domains 3 74.76(n)
    76.09(a)
      419607  XM_417754.3  XP_417754.1 
    lizard
    (Anolis carolinensis)
    Reptilia FHL36
    Uncharacterized protein
    68(a)
    1 ↔ 1
    GL343426.1(612820-621291)
    zebrafish
    (Danio rerio)
    Actinopterygii wufb09g092 wufb09g09 73.63(n)   336412  BC061449.1 
    worm
    (Caenorhabditis elegans)
    Secernentea F25H5.1a3 LIM domain containing proteins (6
    domains)
    47(a)
    (best of 2)
      I(9190482-9200886)   --


    ENSEMBL Gene Tree for FHL3 (if available)
    TreeFam Gene Tree for FHL3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for FHL3 gene
    ABLIM32  LIMS12  LIMS3L2  DMTN2  LDB32  FHL52  LPXN2  PDLIM52  
    ENSG000002572072  ABLIM22  LIMS22  FHL22  ABLIM12  PDLIM72  FHL12  LIMS32  
    TGFB1I12  PXN2  
    10 SIMAP similar genes for FHL3 using alignment to 3 protein entries:     FHL3_HUMAN (see all proteins):
    AAG11    FHL2    FHL5    FHL1    LHx4    PRICKLE2
    LDB3    LMO6    PRICKLE3    TGFB1I1

    FHL3 for paralogs           About GeneDecksing



    (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) 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

    10/278 SNPs in FHL3 are shown (see all 278)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs729237241,2
    C,F--38461994(+) CCCTTG/CCTAAT 2 -- ds50011Minor allele frequency- C:0.03WA 118
    rs1814963911,2
    --38462077(+) GCGGGA/CTTTGG 2 -- ds50010--------
    rs1996137961,2
    C--38462168(+) CCCCC-/AAACCC 2 -- ds50010--------
    rs1860066941,2
    --38462224(+) CAGGAC/TGAGCT 2 -- ds50010--------
    rs118115421,2
    C,H--38462294(+) GGCCCA/GGCCCC 2 -- ds50011Minor allele frequency- G:0.00NA 2
    rs1911712601,2
    --38462395(+) ACACAA/CACACA 2 -- ds50010--------
    rs1468712121,2
    --38462525(+) GAGCTA/GAAATA 2 -- ut310--------
    rs1833330761,2
    --38462753(+) CCAGAA/GTCCAG 2 -- ut310--------
    rs1862695891,2
    --38462843(+) ATTCTA/GGAGTC 2 -- ut310--------
    rs45953381,2
    C--38462877(-) AGCCTC/TCATGA 2 -- ut31 ese32Minor allele frequency- T:0.00NA 4

    HapMap Linkage Disequilibrium report for FHL3 (38462442 - 38471278 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for FHL3: --
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing FHL3
    DNA2.0 Custom Variant and Variant Library Synthesis for FHL3

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 602790    OMIM disorders: --

    3 diseases for FHL3:    About MalaCards
    hemophagocytic lymphohistiocytosis    hypoxia    leukemia


    FHL3 for disorders           About GeneDecksing

    Genetic Association Database (GAD): FHL3
    Human Genome Epidemiology (HuGE) Navigator: FHL3 (4 documents)

    Export disorders for FHL3 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)
    About This Section

    PubMed articles for FHL3 gene, integrated from 9 sources (see all 39):
    (articles sorted by number of sources associating them with FHL3)
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    1. Slim defines a novel family of LIM-proteins expressed in skeletal muscle. (PubMed id 8753811)1, 2, 3 Morgan M.J. and Madgwick A.J.A. (1996)
    2. The LIM proteins FHL1 and FHL3 are expressed differently in skeletal muscle. (PubMed id 10049693)1, 2, 9 Morgan M.J. and Madgwick A.J.A. (1999)
    3. Chromosomal mapping of a skeletal muscle specific LIM -only protein FHL3 to the distal end of the short arm of human chromosome 1. (PubMed id 10226657)1, 3, 9 Lee S.M....Lee C.Y. (1998)
    4. Protein-protein interaction of FHL3 with FHL2 and visualization of their interaction by green fluorescent proteins (GFP) two-fusion fluorescence resonance energy transfer (FRET). (PubMed id 11135358)1, 9 Li H.Y....Waye M.M. (2001)
    5. The LIM-only proteins FHL2 and FHL3 interact with alpha- and beta-subunits of the muscle alpha7beta1 integrin receptor. (PubMed id 15117962)1, 9 Samson T....Wixler V. (2004)
    6. FHL3 negatively regulates human high-affinity IgE receptor beta-chain gene expression by acting as a transcriptional co-repressor of MZF- 1. (PubMed id 15453830)1, 9 Takahashi K.... Ra C. (2005)
    7. LIM-only protein FHL3 interacts with CDC25B2 phosphatase. (PubMed id 12681290)1, 9 Mils V....Tsui S.K. (2003)
    8. Human four-and-a-half LIM family members suppress tumor cell growth through a TGF-beta-like signaling pathway. (PubMed id 19139564)1, 9 Ding L....Ye Q. (2009)
    9. The four and a half LIM family members are novel inter actants of the human T-cell leukemia virus type 1 Tax oncoprotein. (PubMed id 23616667)1 McCabe A....Sheehy N. (2013)
    10. Charting the landscape of tandem BRCT domain-mediated protein interactions. (PubMed id 22990118)1 Woods N.T....Monteiro A.N. (2012)

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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: 2275 HGNC: 3704 AceView: FHL3 Ensembl:ENSG00000183386 euGenes: HUgn2275
    ECgene: FHL3 H-InvDB: FHL3

    (According to HUGE)
    About This Section
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for FHL3 Pharmacogenomics, SNPs, Pathways

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    Patent Information for FHL3 gene:
    Search GeneIP for patents involving FHL3

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