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

LIG3 Gene

protein-coding   GIFtS: 69
GCID: GC17P033307

Ligase III, DNA, ATP-Dependent

(Previous names: ligase II, DNA, ATP-dependent)
(Previous symbol: LIG2)
  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
Ligase III, DNA, ATP-Dependent1 2     EC 6.5.1.13 8
LIG21 2     DNA Ligase 32
Ligase II, DNA, ATP-Dependent1 2     DNA Ligase III3
Polydeoxyribonucleotide Synthase [ATP] 32 3     

External Ids:    HGNC: 66001   Entrez Gene: 39802   Ensembl: ENSG000000051567   OMIM: 6009405   UniProtKB: P499163   

Export aliases for LIG3 gene to outside databases

Previous GC identifers: GC17P033077 GC17P035343 GC17P033453 GC17P030331 GC17P029493


(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 LIG3 Gene:
This gene is a member of the DNA ligase family. Each member of this family encodes a protein that catalyzes the
joining of DNA ends but they each have a distinct role in DNA metabolism. The protein encoded by this gene is
involved in excision repair and is located in both the mitochondria and nucleus, with translation initiation from
the upstream start codon allowing for transport to the mitochondria and translation initiation from a downstream
start codon allowing for transport to the nucleus. Additionally, alternate transcriptional splice variants,
encoding different isoforms, have been characterized. (provided by RefSeq, Jul 2008)

GeneCards Summary for LIG3 Gene: 
LIG3 (ligase III, DNA, ATP-dependent) is a protein-coding gene. Diseases associated with LIG3 include bloom syndrome, and axonal neuropathy, and among its related super-pathways are Removal of DNA patch containing abasic residue and Base-free sugar-phosphate removal via the single-nucleotide replacement pathway. GO annotations related to this gene include DNA ligase activity and DNA ligase (ATP) activity. An important paralog of this gene is LIG4.

UniProtKB/Swiss-Prot: DNLI3_HUMAN, P49916
Function: Interacts with DNA-repair protein XRCC1 and can correct defective DNA strand-break repair and sister
chromatid exchange following treatment with ionizing radiation and alkylating agents

summary for LIG3 Gene:
Ligases catalyze the joining of two molecules with concomitant hydrolysis of the diphosphate bond in ATP or
a similar triphosphate. They belong to the E.C. 6 class, which also includes synthases and carboxylases. DNA
ligases play an integral role in DNA repair and replication: they catalyze the formation of phosphodiester
bonds, using ATP as a co-factor. These enzymes are divided into three classes: DNA ligase I, III and IV. DNA
ligase I links Okazaki fragments to form a continuous strand of DNA. DNA ligase III is involved in base
excision repair. Finally, DNA ligase IV is involved in the repair of DNA double-strand breaks by
non-homologous end joining (NHEJ).




(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_000017.10  NT_010799.15  NC_018928.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the LIG3 gene promoter:
         AML1a   p53   FOXO3   FOXO3a   Pax-2   Pax-2a   LyF-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidLIG3 promoter sequence
   Search SABiosciences Chromatin IP Primers for LIG3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LIG3


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

Entrez Gene cytogenetic band: 17q11.2-q12   Ensembl cytogenetic band:  17q12   HGNC cytogenetic band: 17q11.2-q12

LIG3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
LIG3 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P033307:  view genomic region     (about GC identifiers)

Start:
33,307,513 bp from pter      End:
33,332,088 bp from pter
Size:
24,576 bases      Orientation:
plus 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: DNLI3_HUMAN, P49916 (See protein sequence)
Recommended Name: DNA ligase 3  
Size: 1009 amino acids; 112907 Da
Cofactor: Magnesium (By similarity)
Subcellular location: Nucleus
Sequence caution: Sequence=AAA85022.1; Type=Erroneous initiation; Sequence=AAL91592.1; Type=Erroneous initiation;
Sequence=CAA59230.1; Type=Erroneous initiation;
6/7 PDB 3D structures from and Proteopedia for LIG3 (see all 7):
1IMO (3D)        1IN1 (3D)        1UW0 (3D)        3L2P (3D)        3PC7 (3D)        3PC8 (3D)    
Secondary accessions: Q16714 Q6NVK3
Alternative splicing: 2 isoforms:  P49916-1   P49916-2   

Explore the universe of human proteins at neXtProt for LIG3: NX_P49916

Explore proteomics data for LIG3 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_P49916

  • 2 DME Specific Peptides for LIG3 (P49916)
     PVQPMLA  DGERVQVH 

    LIG3 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    LIG3 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_002302.2  NP_039269.2  

    ENSEMBL proteins: 
     ENSP00000367787   ENSP00000468479   ENSP00000262327   ENSP00000467063   ENSP00000467757  
     ENSP00000466278   ENSP00000465288  
    Reactome Protein details: P49916
    Human Recombinant Protein Products for LIG3: 
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    Novus Biologicals LIG3 Proteins
    Novus Biologicals LIG3 Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 5/6 cellular component terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000794condensed nuclear chromosome ----
    GO:0000795synaptonemal complex IEA--
    GO:0005634nucleus IDA--
    GO:0005654nucleoplasm TAS--
    GO:0005694chromosome IBA--

    LIG3 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
    5/8 InterPro protein domains (see all 8):
     IPR012340 NA-bd_OB-fold
     IPR012308 DNA_ligase_ATP-dep_N
     IPR012310 DNA_ligase_ATP-dep_cent
     IPR001510 Znf_PARP
     IPR016059 DNA_ligase_ATP-dep_CS

    Graphical View of Domain Structure for InterPro Entry P49916

    ProtoNet protein and cluster: P49916

    3 Blocks protein domains:
    IPB001357 BRCT domain
    IPB001510 Zn-finger
    IPB012308 DNA ligase


    UniProtKB/Swiss-Prot: DNLI3_HUMAN, P49916
    Similarity: Belongs to the ATP-dependent DNA ligase family
    Similarity: Contains 1 BRCT domain
    Similarity: Contains 1 PARP-type zinc finger


    LIG3 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:

         UniProtKB/Swiss-Prot Summary: DNLI3_HUMAN, P49916
    Function: Interacts with DNA-repair protein XRCC1 and can correct defective DNA strand-break repair and sister
    chromatid exchange following treatment with ionizing radiation and alkylating agents
    Catalytic activity: ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate +
    (deoxyribonucleotide)(n+m)

         Genatlas biochemistry entry for LIG3:
    DNA ligase III,ATP-dependent,103kDa,complexing with LIG3,involved in DNA replication,recombination and DNA
    repair,highly expressed in testes

         Enzyme Number (IUBMB): EC 6.5.1.11 2

         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:0003677DNA binding IEA--
    GO:0003909DNA ligase activity IDA9809069
    GO:0003910DNA ligase (ATP) activity IBA--
    GO:0005515protein binding IPI15744309
    GO:0005524ATP binding IEA--
         
    LIG3 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for LIG3:
     Synthetic lethal with Ras 

         10 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Lig3):
     behavior/neurological  cardiovascular system  cellular  craniofacial  embryogenesis 
     growth/size  homeostasis/metabolism  mortality/aging  muscle  nervous system 

    LIG3 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Lig3tm1Czhu for LIG3

       inGenious Targeting Laboratory - Custom generated mouse model solutions for LIG3 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for LIG3

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for LIG3 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for LIG3 

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    hsa-miR-221* hsa-miR-579 hsa-miR-3128 hsa-miR-3065-3p hsa-miR-3662 hsa-miR-3156-5p
    SwitchGear 3'UTR luciferase reporter plasmidLIG3 3' UTR sequence
    Inhib. RNA
    Products:
        
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    Gene Editing
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    Clone
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LIG3


    (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

    SuperPaths for LIG3 About   (see all 6)                                                                                              See pathways by source

    SuperPathContained pathways About
    1Resolution of Abasic Sites (AP sites)
    Resolution of Abasic Sites (AP sites)0.89
    Base excision repair0.53
    Base Excision Repair0.89
    2Base-Excision Repair, AP Site Formation
    Resolution of AP sites via the single-nucleotide replacement pathway0.83
    3Global Genomic NER (GG-NER)
    Nucleotide Excision Repair Pathway0.49
    4Nucleotide Excision Repair
    DNA Repair0.46
    5Chks in Checkpoint Regulation
    DNA Repair Mechanisms0.32

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 EMD Millipore Pathway for LIG3
        Meiosis

    2 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for LIG3
        DNA Repair Mechanisms
    Nucleotide Excision Repair Pathway

    4        Reactome Pathways for LIG3
        DNA Repair
    Base Excision Repair
    Resolution of Abasic Sites (AP sites)
    Resolution of AP sites via the single-nucleotide replacement pathway


    1         Kegg Pathway  (Kegg details for LIG3):
        Base excision repair


    LIG3 for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for LIG3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 22)

    5/37 Interacting proteins for LIG3 (P499162, 3 ENSP000003677874) via UniProtKB, MINT, STRING, and/or I2D (see all 37)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    PIK3R1P279862, 3, ENSP000002743354MINT-8111871 I2D: score=2 STRING: ENSP00000274335
    PLCG1P191742, 3, ENSP000002440074MINT-8112471 I2D: score=2 STRING: ENSP00000244007
    ENSG00000206454Q018603I2D: score=1 
    ENSG00000229094Q018603I2D: score=1 
    ENSG00000230336Q018603I2D: score=1 
    About this table

    Gene Ontology (GO): 5/14 biological process terms (GO ID links to tree view) (see all 14):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006260DNA replication ----
    GO:0006273lagging strand elongation IBA--
    GO:0006281DNA repair TAS--
    GO:0006284base-excision repair TAS--
    GO:0006289nucleotide-excision repair IBA--

    LIG3 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

    LIG3 for compounds           About GeneDecksing

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

    Compounds for LIG3 available from Tocris Bioscience    About this table
    CompoundAction CAS #
    L189 DNA ligase I, III and IV inhibitor [64232-83-3]

    4 HMDB Compounds for LIG3    About this table
    CompoundSynonyms CAS #PubMed Ids
    Adenosine monophosphate5'-AMP (see all 28)61-19-8--
    Adenosine triphosphate5'-(tetrahydrogen triphosphate) Adenosine (see all 24)56-65-5--
    Phosphoric acidacide phosphorique (FRENCH) (see all 20)7664-38-2--
    Pyrophosphate(4-)Diphosphoric acid ion (see all 10)14000-31-8--

    1 DrugBank Compound for LIG3    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    BleomycinBleocin (see all 8)11056-06-7targetinhibitor17202402

    7 Novoseek inferred chemical compound relationships for LIG3 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    poly(ra).oligo(dt) 82.5 1 7510367 (1)
    polynucleotide 76.2 3 11163244 (1), 20099873 (1), 15367657 (1)
    adpribose 46.5 3 8948628 (2), 11016934 (1)
    camptothecin 43 2 9739812 (2)
    methylmethanesulfonate 42.5 1 9379914 (1)
    arsenite 29 1 9379914 (1)
    zinc 26.2 12 10419478 (3), 12897160 (3), 9776738 (2), 17054425 (1) (see all 5)

    Search CenterWatch for drugs/clinical trials and news about LIG3 / DNLI3

    (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 LIG3 gene (2 alternative transcripts): 
    NM_002311.4  NM_013975.3  

    Unigene Cluster for LIG3:

    Ligase III, DNA, ATP-dependent
    Hs.100299  [show with all ESTs]
    Unigene Representative Sequence: NM_013975
    16 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000378526(uc002hik.2) ENST00000585941 ENST00000262327(uc002hii.3 uc002hij.3 uc010cth.1)
    ENST00000592690 ENST00000585740 ENST00000590181 ENST00000586407 ENST00000588109
    ENST00000586435 ENST00000590630 ENST00000586058 ENST00000588713 ENST00000593099
    ENST00000586119 ENST00000585370 ENST00000592244
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    Additional mRNA sequence: 

    AK127668.1 AK300363.1 AK308407.1 BC009026.1 BC068005.1 U40671.1 X84740.1 

    15 DOTS entries:

    DT.313674  DT.95088103  DT.100784860  DT.100784857  DT.120964172  DT.91749274  DT.95358707  DT.120964053 
    DT.100784856  DT.120964009  DT.120964125  DT.91704022  DT.91824684  DT.91837080  DT.100008759 

    24/150 AceView cDNA sequences (see all 150):

    CB127294 BU171391 AA953450 BM759573 BC009026 BX470676 BQ082820 AL528176 
    BM467239 BG230655 CA426477 AK125853 AI682152 AW950125 BP873049 BQ691150 
    U40671 BE901311 BM927151 BF881950 NM_013975 BQ024078 BM726768 BG766643 

    GeneLoc Exon Structure

    5/8 Alternative Splicing Database (ASD) splice patterns (SP) for LIG3 (see all 8)    About this scheme

    ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^
    SP1:                                      -                 -                 -                                               -           -                     
    SP2:                                      -                 -                 -                                               -           -                     
    SP3:                          -     -     -                 -                 -                                                                                 
    SP4:                                                                                                                                                            
    SP5:                                                                                                                                                            

    ExUns: 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21
    SP1:                                -         
    SP2:                                          
    SP3:                                          
    SP4:                                          
    SP5:                                          


    ECgene alternative splicing isoforms for LIG3

    (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

    LIG3 expression in normal human tissues (normalized intensities)      LIG3 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGAAAGAAAA
    LIG3 Expression
    About this image


    LIG3 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/32 selected tissues (see all 32) fully expand
     
     Epithelium
             vagina ; squamous epithelial cells   
     
     Uterus
             uterus, post-menopause ; glandular cells   
     
     Brain (Nervous System)    fully expand to see all 4 entries
             Cerebral Cortex
     
     Blood (Hematopoietic System)    fully expand to see all 3 entries
             Hematopoietic Stem Cells Hematopoietic Bone Marrow
             lung ; macrophages   
             BONE MARROW   
     
     Testis (Reproductive System)    fully expand to see all 3 entries
             seminal vesicle ; glandular cells   

    See LIG3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for LIG3

    SOURCE GeneReport for Unigene cluster: Hs.100299

    UniProtKB/Swiss-Prot: DNLI3_HUMAN, P49916
    Tissue specificity: Testis, thymus, prostate and heart

        SABiosciences Expression via Pathway-Focused PCR Array including LIG3: 
              DNA Repair in human mouse rat

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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 and fungi.

    Orthologs for LIG3 gene from 7/15 species (see all 15)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Lig31 , 5 ligase III, DNA, ATP-dependent1, 5 87.64(n)1
    88.4(a)1
      11 (50.23 cM)5
    168821  NM_010716.21  NP_034846.21 
     827811085 
    chicken
    (Gallus gallus)
    Aves LIG31 ligase III, DNA, ATP-dependent 73.86(n)
    79.87(a)
      417530  NM_001006215.1  NP_001006215.1 
    African clawed frog
    (Xenopus laevis)
    Amphibia LOC3982752 DNA ligase III isoform alpha 76.11(n)    AF393654.1 
    zebrafish
    (Danio rerio)
    Actinopterygii lig31 ligase III, DNA, ATP-dependent 71.97(n)
    77.28(a)
      563276  NM_001030174.1  NP_001025345.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG172273
    lig31
    DNA ligase (ATP)3
    DNA ligase III1
    45(a)3
    52.8(n)1
    47.4(a)1
      87B93
    415181  NM_141930.21  NP_650187.21 
    worm
    (Caenorhabditis elegans)
    Secernentea K07C5.33 DNA ligase like domain 28(a)   V(10345621-10347943)   --
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes DNL46
    DNA ligase required for nonhomologous end-joining ...
    14(a)
    1 → many
    XV(334509-337343)


    ENSEMBL Gene Tree for LIG3 (if available)
    TreeFam Gene Tree for LIG3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for LIG3 gene
    LIG42  
    1 SIMAP similar gene for LIG3 using alignment to 8 protein entries:     DNLI3_HUMAN (see all proteins):
    PARP1

    LIG3 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

    10/590 SNPs in LIG3 are shown (see all 590)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0365134
    A colorectal cancer sample4--see VAR_0365132 D N mis40--------
    rs1939226901,2
    Cprobable-non-pathogenic133382069(+) ACACCT/CGTGCA 4 /P syn11Minor allele frequency- C:0.00EU 1305
    rs573114841,2
    C--33307701(+) GCGGG-/CCCGGG 2 -- int10--------
    rs31360081,2
    C--33325181(+) CTCAC-/TCAC  
            
    CACCT
    2 -- int11Minor allele frequency- TCAC:0.01NS 176
    rs1127886481,2
    C,F--33327524(+) TGCCCG/ACCTCA 2 -- int11Minor allele frequency- A:0.50NA 2
    rs31360191,2
    C,F--33328059(+) gctggG/Aactac 2 -- int11Minor allele frequency- A:0.01NS 162
    rs98951351,2
    C,F--33367967(+) gtggcG/Aggtgc 2 -- us2k14Minor allele frequency- A:0.25NA 8
    rs713646881,2
    C--33368098(+) GTCGC-/AAAAAA 2 -- us2k11Minor allele frequency- A:0.50NA 2
    rs1473454671,2
    --33368376(+) TATATA/GCTGTA 2 -- us2k10--------
    rs1861418591,2
    --33368491(+) GGATTG/TTTCAG 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for LIG3 (33307513 - 33332088 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for LIG3:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv2035CNV Loss18451855


    Human Gene Mutation Database (HGMD): LIG3
    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 600940    OMIM disorders: --

    20/30 diseases for LIG3 (see all 30):    About MalaCards
    bloom syndrome    axonal neuropathy    stomach cancer    apraxia
    mitochondrial disorders    esophageal adenocarcinoma    vaccinia    spinocerebellar ataxia
    chronic myeloid leukemia    graft versus host disease    esophageal squamous cell carcinoma    herpes simplex
    neuropathy    ataxia    pancreatic cancer    esophagitis
    multiple sclerosis    ovarian cancer    lung cancer    myeloid leukemia

    1 disease from the University of Copenhagen DISEASES database for LIG3:
    Vaccinia

    LIG3 for disorders           About GeneDecksing

    2 Novoseek inferred disease relationships for LIG3 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    bloom syndrome 63.3 4 8532526 (1), 8265359 (1)
    cancer 0 1 15257099 (1)

    Genetic Association Database (GAD): LIG3
    Human Genome Epidemiology (HuGE) Navigator: LIG3 (37 documents)

    Export disorders for LIG3 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 LIG3 gene, integrated from 9 sources (see all 152):
    (articles sorted by number of sources associating them with LIG3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Molecular cloning and expression of human cDNAs encoding a novel DNA ligase IV and DNA ligase III, an enzyme active in DNA repair and recombination. (PubMed id 7760816)1, 2, 3, 9 Wei Y.-F.... Lindahl T. (1995)
    2. Mammalian DNA ligase III: molecular cloning, chromosomal localization, and expression in spermatocytes undergoing meiotic recombination. (PubMed id 7565692)1, 2, 9 Chen J.... Husain I. (1995)
    3. Polymorphisms in DNA repair genes and risk of non-Hod gkin lymphoma in a pooled analysis of three studies. (PubMed id 20813000)1, 4 Shen M....Zheng T. (2010)
    4. A Large-scale genetic association study of esophageal adenocarcinoma risk. (PubMed id 20453000)1, 4 Liu C.Y....Christiani D.C. (2010)
    5. Polymorphisms in the base excision repair pathway and graft-versus-host disease. (PubMed id 20574454)1, 4 Arora M....Thyagarajan B. (2010)
    6. Genetic susceptibility to distinct bladder cancer sub phenotypes. (PubMed id 19692168)1, 4 Guey L.T....Malats N. (2010)
    7. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (2010)
    8. Comprehensive analysis of DNA repair gene polymorphis ms and survival in patients with early stage non-small-cell lung cancer. (PubMed id 20731661)1, 4 Kim M....Park J.Y. (2010)
    9. Variation within DNA repair pathway genes and risk of multiple sclerosis. (PubMed id 20522537)1, 4 Briggs F.B....Barcellos L.F. (2010)
    10. Association between genetic variants in the base exci sion repair pathway and outcomes after hematopoietic cell transplantations. (PubMed id 20226869)1, 4 Thyagarajan B....Arora M. (2010)

    (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: 3980 HGNC: 6600 AceView: LIG3 Ensembl:ENSG00000005156 euGenes: HUgn3980
    ECgene: LIG3 Kegg: 3980 H-InvDB: LIG3

    (According to HUGE)
    About This Section
      --

    (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 LIG3 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for LIG3 Genetics and Cytogenetics in Oncology and Haematology
    Wikipedia http://en.wikipedia.org/wiki/DNA_ligase
    NIEHS-SNPshttp://egp.gs.washington.edu/data/mpg/

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for LIG3 gene:
    Search GeneIP for patents involving LIG3

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



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