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LIG4 (DNA ligase 4)

Identity

Alias (NCBI)LIG4S
HGNC (Hugo) LIG4
HGNC Alias namepolydeoxyribonucleotide synthase [ATP] 4
 polynucleotide ligase
 sealase
 DNA repair enzyme
 DNA joinase
HGNC Previous nameligase IV, DNA, ATP-dependent
LocusID (NCBI) 3981
Atlas_Id 41156
Location 13q33.3  [Link to chromosome band 13q33]
Location_base_pair Starts at 108207444 and ends at 108215536 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
FKBP8 (19p13.11) / LIG4 (13q33.3)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 



External links

 

Nomenclature
HGNC (Hugo)LIG4   6601
LRG (Locus Reference Genomic)LRG_79
Cards
Entrez_Gene (NCBI)LIG4    DNA ligase 4
AliasesLIG4S
GeneCards (Weizmann)LIG4
Ensembl hg19 (Hinxton)ENSG00000174405 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000174405 [Gene_View]  ENSG00000174405 [Sequence]  chr13:108207444-108215536 [Contig_View]  LIG4 [Vega]
ICGC DataPortalENSG00000174405
TCGA cBioPortalLIG4
AceView (NCBI)LIG4
Genatlas (Paris)LIG4
SOURCE (Princeton)LIG4
Genetics Home Reference (NIH)LIG4
Genomic and cartography
GoldenPath hg38 (UCSC)LIG4  -     chr13:108207444-108215536 -  13q33.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LIG4  -     13q33.3   [Description]    (hg19-Feb_2009)
GoldenPathLIG4 - 13q33.3 [CytoView hg19]  LIG4 - 13q33.3 [CytoView hg38]
ImmunoBaseENSG00000174405
Genome Data Viewer NCBILIG4 [Mapview hg19]  
OMIM254500   601837   606593   
Gene and transcription
Genbank (Entrez)AI809944 AK292419 AK314844 BC037491 BX648833
RefSeq transcript (Entrez)NM_001098268 NM_001330595 NM_001352598 NM_001352599 NM_001352600 NM_001352601 NM_001352602 NM_001352603 NM_001352604 NM_001379095 NM_002312 NM_206937
Consensus coding sequences : CCDS (NCBI)LIG4
Gene ExpressionLIG4 [ NCBI-GEO ]   LIG4 [ EBI - ARRAY_EXPRESS ]   LIG4 [ SEEK ]   LIG4 [ MEM ]
Gene Expression Viewer (FireBrowse)LIG4 [ Firebrowse - Broad ]
GenevisibleExpression of LIG4 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3981
GTEX Portal (Tissue expression)LIG4
Human Protein AtlasENSG00000174405-LIG4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP49917   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP49917  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP49917
PhosPhoSitePlusP49917
Domaine pattern : Prosite (Expaxy)BRCT (PS50172)    DNA_LIGASE_A1 (PS00697)    DNA_LIGASE_A2 (PS00333)    DNA_LIGASE_A3 (PS50160)   
Domains : Interpro (EBI)Adenylation_DNA_ligase_IV    BRCT_dom    BRCT_dom_sf    DNA_ligase_ATP-dep    DNA_ligase_ATP-dep_C    DNA_ligase_ATP-dep_cent    DNA_ligase_ATP-dep_CS    DNA_ligase_ATP-dep_N    DNA_ligase_IV_dom    DNA_ligase_N_sf    LIG4    NA-bd_OB-fold   
Domain families : Pfam (Sanger)BRCT (PF00533)    DNA_ligase_A_C (PF04679)    DNA_ligase_A_M (PF01068)    DNA_ligase_A_N (PF04675)    DNA_ligase_IV (PF11411)   
Domain families : Pfam (NCBI)pfam00533    pfam04679    pfam01068    pfam04675    pfam11411   
Domain families : Smart (EMBL)BRCT (SM00292)  
Conserved Domain (NCBI)LIG4
PDB (RSDB)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP    6BKF    6BKG   
PDB Europe1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP    6BKF    6BKG   
PDB (PDBSum)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP    6BKF    6BKG   
PDB (IMB)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP    6BKF    6BKG   
Structural Biology KnowledgeBase1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP    6BKF    6BKG   
SCOP (Structural Classification of Proteins)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP    6BKF    6BKG   
CATH (Classification of proteins structures)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP    6BKF    6BKG   
SuperfamilyP49917
AlphaFold pdb e-kbP49917   
Human Protein Atlas [tissue]ENSG00000174405-LIG4 [tissue]
HPRD03500
Protein Interaction databases
DIP (DOE-UCLA)P49917
IntAct (EBI)P49917
BioGRIDLIG4
STRING (EMBL)LIG4
ZODIACLIG4
Ontologies - Pathways
QuickGOP49917
Ontology : AmiGOsingle strand break repair  chromosome, telomeric region  condensed chromosome  in utero embryonic development  pro-B cell differentiation  DNA binding  DNA binding  DNA ligase activity  DNA ligase (ATP) activity  DNA ligase (ATP) activity  protein binding  ATP binding  nucleus  nucleoplasm  nucleoplasm  DNA-dependent protein kinase-DNA ligase 4 complex  DNA-dependent protein kinase-DNA ligase 4 complex  DNA-dependent protein kinase-DNA ligase 4 complex  DNA replication  DNA ligation  nucleotide-excision repair, DNA gap filling  nucleotide-excision repair, DNA gap filling  double-strand break repair  double-strand break repair  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  cell cycle  central nervous system development  protein C-terminus binding  cell population proliferation  response to X-ray  response to gamma radiation  ligase activity  DNA ligase IV complex  DNA ligase IV complex  T cell differentiation in thymus  V(D)J recombination  immunoglobulin V(D)J recombination  T cell receptor V(D)J recombination  somatic stem cell population maintenance  cytoplasmic ribonucleoprotein granule  negative regulation of neuron apoptotic process  isotype switching  metal ion binding  positive regulation of fibroblast proliferation  positive regulation of neurogenesis  DNA ligation involved in DNA recombination  DNA ligation involved in DNA repair  DNA ligation involved in DNA repair  DNA ligation involved in DNA repair  chromosome organization  cell division  neuron apoptotic process  nonhomologous end joining complex  cellular response to lithium ion  cellular response to ionizing radiation  DNA biosynthetic process  establishment of integrated proviral latency  double-strand break repair via classical nonhomologous end joining  positive regulation of chromosome organization  
Ontology : EGO-EBIsingle strand break repair  chromosome, telomeric region  condensed chromosome  in utero embryonic development  pro-B cell differentiation  DNA binding  DNA binding  DNA ligase activity  DNA ligase (ATP) activity  DNA ligase (ATP) activity  protein binding  ATP binding  nucleus  nucleoplasm  nucleoplasm  DNA-dependent protein kinase-DNA ligase 4 complex  DNA-dependent protein kinase-DNA ligase 4 complex  DNA-dependent protein kinase-DNA ligase 4 complex  DNA replication  DNA ligation  nucleotide-excision repair, DNA gap filling  nucleotide-excision repair, DNA gap filling  double-strand break repair  double-strand break repair  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  cell cycle  central nervous system development  protein C-terminus binding  cell population proliferation  response to X-ray  response to gamma radiation  ligase activity  DNA ligase IV complex  DNA ligase IV complex  T cell differentiation in thymus  V(D)J recombination  immunoglobulin V(D)J recombination  T cell receptor V(D)J recombination  somatic stem cell population maintenance  cytoplasmic ribonucleoprotein granule  negative regulation of neuron apoptotic process  isotype switching  metal ion binding  positive regulation of fibroblast proliferation  positive regulation of neurogenesis  DNA ligation involved in DNA recombination  DNA ligation involved in DNA repair  DNA ligation involved in DNA repair  DNA ligation involved in DNA repair  chromosome organization  cell division  neuron apoptotic process  nonhomologous end joining complex  cellular response to lithium ion  cellular response to ionizing radiation  DNA biosynthetic process  establishment of integrated proviral latency  double-strand break repair via classical nonhomologous end joining  positive regulation of chromosome organization  
Pathways : KEGGNon-homologous end-joining   
NDEx NetworkLIG4
Atlas of Cancer Signalling NetworkLIG4
Wikipedia pathwaysLIG4
Orthology - Evolution
OrthoDB3981
GeneTree (enSembl)ENSG00000174405
Phylogenetic Trees/Animal Genes : TreeFamLIG4
Homologs : HomoloGeneLIG4
Homology/Alignments : Family Browser (UCSC)LIG4
Gene fusions - Rearrangements
Fusion : QuiverLIG4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLIG4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LIG4
dbVarLIG4
ClinVarLIG4
MonarchLIG4
1000_GenomesLIG4 
Exome Variant ServerLIG4
GNOMAD BrowserENSG00000174405
Varsome BrowserLIG4
ACMGLIG4 variants
VarityP49917
Genomic Variants (DGV)LIG4 [DGVbeta]
DECIPHERLIG4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLIG4 
Mutations
ICGC Data PortalLIG4 
TCGA Data PortalLIG4 
Broad Tumor PortalLIG4
OASIS PortalLIG4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLIG4  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DLIG4
Mutations and Diseases : HGMDLIG4
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaLIG4
DgiDB (Drug Gene Interaction Database)LIG4
DoCM (Curated mutations)LIG4
CIViC (Clinical Interpretations of Variants in Cancer)LIG4
Cancer3DLIG4
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM254500    601837    606593   
Orphanet472    10452    14385   
DisGeNETLIG4
MedgenLIG4
Genetic Testing Registry LIG4
NextProtP49917 [Medical]
GENETestsLIG4
Target ValidationLIG4
Huge Navigator LIG4 [HugePedia]
ClinGenLIG4
Clinical trials, drugs, therapy
MyCancerGenomeLIG4
Protein Interactions : CTDLIG4
Pharm GKB GenePA30375
PharosP49917
Clinical trialLIG4
Miscellaneous
canSAR (ICR)LIG4
HarmonizomeLIG4
DataMed IndexLIG4
Probes
Litterature
PubMed189 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXLIG4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Oct 4 15:15:55 CEST 2021

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