ENSG00000174405


Homo sapiens

Features
Gene ID: ENSG00000174405
  
Biological name :LIG4
  
Synonyms : DNA ligase 4 / LIG4 / P49917
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: 13
Strand: -1
Band: q33.3
Gene start: 108207439
Gene end: 108218368
  
Corresponding Affymetrix probe sets: 206235_at (Human Genome U133 Plus 2.0 Array)   227766_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000484288
Ensembl peptide - ENSP00000385955
Ensembl peptide - ENSP00000402030
Ensembl peptide - ENSP00000480814
Ensembl peptide - ENSP00000349393
NCBI entrez gene - 3981     See in Manteia.
OMIM - 601837
RefSeq - XM_017020573
RefSeq - XM_005254056
RefSeq - XM_005254057
RefSeq - XM_005254058
RefSeq - XM_006719951
RefSeq - XM_006719952
RefSeq - XM_011521091
RefSeq - XM_011521092
RefSeq - XM_017020563
RefSeq - XM_017020564
RefSeq - XM_017020568
RefSeq - XM_017020569
RefSeq - XM_017020570
RefSeq - XM_017020571
RefSeq - XM_017020572
RefSeq - NM_001098268
RefSeq - NM_001330595
RefSeq - NM_001352600
RefSeq - NM_001352601
RefSeq - NM_001352602
RefSeq - NM_001352603
RefSeq - NM_001352604
RefSeq - NM_002312
RefSeq - NM_206937
RefSeq Peptide - NP_001339528
RefSeq Peptide - NP_001339529
RefSeq Peptide - NP_001339530
RefSeq Peptide - NP_001339531
RefSeq Peptide - NP_001339532
RefSeq Peptide - NP_001339533
RefSeq Peptide - NP_002303
RefSeq Peptide - NP_996820
RefSeq Peptide - NP_001091738
RefSeq Peptide - NP_001317524
RefSeq Peptide - NP_001339527
swissprot - P49917
swissprot - A0A024RE06
swissprot - A0A0C4DGV9
Ensembl - ENSG00000174405
  
Related genetic diseases (OMIM): 254500 - {Multiple myeloma, resistance to}, 254500
  606593 - LIG4 syndrome, 606593
See expression report in BioGPS
See gene description in Wikigenes
See gene description in GeneCards
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 lig4ENSDARG00000060620Danio rerio
 LIG4ENSGALG00000016854Gallus gallus
 Lig4ENSMUSG00000049717Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
No match


Protein motifs (from Interpro)
Interpro ID Name
 IPR000977  DNA ligase, ATP-dependent
 IPR001357  BRCT domain
 IPR012308  DNA ligase, ATP-dependent, N-terminal
 IPR012309  DNA ligase, ATP-dependent, C-terminal
 IPR012310  DNA ligase, ATP-dependent, central
 IPR012340  Nucleic acid-binding, OB-fold
 IPR016059  DNA ligase, ATP-dependent, conserved site
 IPR021536  DNA ligase IV domain
 IPR029710  DNA ligase 4
 IPR036420  BRCT domain superfamily
 IPR036599  DNA ligase, ATP-dependent, N-terminal domain superfamily


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0000012 single strand break repair IDA
 biological_processGO:0001701 in utero embryonic development ISS
 biological_processGO:0002328 pro-B cell differentiation ISS
 biological_processGO:0006260 DNA replication IEA
 biological_processGO:0006266 DNA ligation IDA
 biological_processGO:0006281 DNA repair IEA
 biological_processGO:0006297 nucleotide-excision repair, DNA gap filling IDA
 biological_processGO:0006302 double-strand break repair ISS
 biological_processGO:0006303 double-strand break repair via nonhomologous end joining ISS
 biological_processGO:0006310 DNA recombination IEA
 biological_processGO:0006974 cellular response to DNA damage stimulus IEA
 biological_processGO:0007049 cell cycle IEA
 biological_processGO:0007417 central nervous system development ISS
 biological_processGO:0008283 cell proliferation ISS
 biological_processGO:0010165 response to X-ray IMP
 biological_processGO:0010212 response to ionizing radiation IEA
 biological_processGO:0010332 response to gamma radiation ISS
 biological_processGO:0033077 T cell differentiation in thymus ISS
 biological_processGO:0033151 V(D)J recombination IDA
 biological_processGO:0033152 immunoglobulin V(D)J recombination IBA
 biological_processGO:0033153 T cell receptor V(D)J recombination ISS
 biological_processGO:0035019 somatic stem cell population maintenance ISS
 biological_processGO:0043524 negative regulation of neuron apoptotic process ISS
 biological_processGO:0045190 isotype switching ISS
 biological_processGO:0048146 positive regulation of fibroblast proliferation ISS
 biological_processGO:0050769 positive regulation of neurogenesis ISS
 biological_processGO:0051102 DNA ligation involved in DNA recombination ISS
 biological_processGO:0051103 DNA ligation involved in DNA repair ISS
 biological_processGO:0051276 chromosome organization ISS
 biological_processGO:0051301 cell division IEA
 biological_processGO:0051402 neuron apoptotic process ISS
 biological_processGO:0071285 cellular response to lithium ion IEA
 biological_processGO:0071897 DNA biosynthetic process IEA
 biological_processGO:0075713 establishment of integrated proviral latency TAS
 biological_processGO:0097680 double-strand break repair via classical nonhomologous end joining IMP
 biological_processGO:2001252 positive regulation of chromosome organization IMP
 cellular_componentGO:0000784 nuclear chromosome, telomeric region IC
 cellular_componentGO:0000793 condensed chromosome IDA
 cellular_componentGO:0005634 nucleus IEA
 cellular_componentGO:0005654 nucleoplasm TAS
 cellular_componentGO:0005737 cytoplasm IBA
 cellular_componentGO:0005958 DNA-dependent protein kinase-DNA ligase 4 complex IDA
 cellular_componentGO:0032807 DNA ligase IV complex IMP
 cellular_componentGO:0036464 cytoplasmic ribonucleoprotein granule IDA
 cellular_componentGO:0070419 nonhomologous end joining complex IDA
 molecular_functionGO:0000166 nucleotide binding IEA
 molecular_functionGO:0003677 DNA binding IDA
 molecular_functionGO:0003909 DNA ligase activity TAS
 molecular_functionGO:0003910 DNA ligase (ATP) activity IDA
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0005524 ATP binding IEA
 molecular_functionGO:0008022 protein C-terminus binding IPI
 molecular_functionGO:0016874 ligase activity IEA
 molecular_functionGO:0046872 metal ion binding IEA


Pathways (from Reactome)
Pathway description
2-LTR circle formation
Nonhomologous End-Joining (NHEJ)


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 HP:0000028 Cryptorchidism "Absence of one or both testes from the scrotum owing to failure of the testis or testes to descend through the inguinal canal to the testis." [HPO:curators]
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 HP:0000047 Hypospadias "Displacement of the urethral opening on the ventral (inferior) surface of the penis." [HPO:curators]
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 HP:0000055 Abnormality of female external genitalia 
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 HP:0000100 Nephrotic syndrome 
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 HP:0000126 Hydronephrosis 
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 HP:0000154 Wide mouth "Abnormally wide mouth." [HPO:curators]
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 HP:0000176 Submucous cleft palate "A cleft palate that is covered by the mucous membrane of the roof of the mouth, which can make the cleft more difficult to observe upon physical examination. Soft-palate submucous clefts are characterized by a midline deficiency or lack of muscle tissue. Hard-palate submucous clefts are characterized by bony defects in the midline of the bony palate. It may be possible to detect a submucous cleft palate upon palpation as a notch in the bony palate." [HPO:curators, pmid:19779505]
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 HP:0000218 High palate "Height of the palate more than 2 SD above the mean (objective) or palatal height at the level of the first permanent molar more than twice the height of the teeth (subjective)." [pmid:19125428]
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 HP:0000233 Thin vermillion border 
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 HP:0000238 Hydrocephalus 
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 HP:0000248 Brachycephaly "Brachycephaly refers to a short, wide head, which is often caused by premature closure of both coronal sutures." [HPO:curators]
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 HP:0000252 Microcephaly "Microcephaly is a neurodevelopmental disorder in which the circumference of the head is more than two standard deviations smaller than the age- and gender-dependent norm." [HPO:curators]
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 HP:0000260 Wide anterior fontanel "Enlargement of the anterior fontanelle with respect to age-dependent norms." [HPO:curators]
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 HP:0000270 Delayed closure of fontanelles "Infants normally have two fontanels at birth, the diamond-shaped anterior fontanelle at the junction of the coronal and sagittal sutures, and the posterior fontanelle at the intersection of the occipital and parietal bones. The posterior fontanelle usually closes by the 8th week of life, and the anterior fontanel closes by the 18th month of life on average. This term applies if there is delay of closure of the fontanelles beyond the normal age." [HPO:curators]
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 HP:0000275 Narrow face 
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 HP:0000286 Epicanthus "An epicanthal fold is a semilunar fold of skin that extends from the upper eyelid across the medial canthal area to the lower eyelid." [HPO:curators]
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 HP:0000294 Low frontal hairline "A condition in which the scalp hair is present at lower than usual areas of the forehead." [HPO:curators]
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 HP:0000316 Hypertelorism 
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 HP:0000320 Bird-like facies 
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 HP:0000340 Sloping forehead "A form of the forehead that slopes from top to bottom in an anterior direction." [HPO:curators]
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 HP:0000347 Mandibular hypoplasia "Underdevelopment of the mandible." [HPO:curators]
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 HP:0000365 Hearing loss 
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 HP:0000368 Low-set, posteriorly rotated ears 
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 HP:0000411 Protruding ears 
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 HP:0000431 Broad nasal bridge "Increased horizontal dimension of the upper, bony part of the nose." [HPO:curators]
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 HP:0000486 Strabismus "Strabismus (also known as squint) is a condition in which the eyes are not properly aligned with each other." [HPO:curators]
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 HP:0000506 Telecanthus "An abnormally increased distance between the medial canthi (angle between eyelids) of the eyelids." [HPO:curators]
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 HP:0000508 Ptosis "Drooping of the eyelid." [HPO:curators]
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 HP:0000518 Cataract "A cataract is an opacity or clouding that develops in the crystalline `lens` (FMA:58241) of the eye or in its `capsule` (FMA:58881)." [HPO:probinson]
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 HP:0000545 Myopia 
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 HP:0000581 Blepharophimosis "Reduced width of the palpebral fissures." [HPO:sdoelken]
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 HP:0000582 Upslanting palpebral fissures 
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 HP:0000639 Nystagmus "Rhythmic, involuntary oscillations of one or both eyes related to abnormality in fixation, conjugate gaze, or vestibular mechanisms." [HPO:curators]
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 HP:0000684 Delayed dentition "Delayed eruption of teeth." [HPO:curators]
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 HP:0000767 Pectus excavatum "A defect of the chest wall characterized by a depression of the sternum, giving the chest ("pectus") a caved-in ("excavatum") appearance." [HPO:curators]
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 HP:0000821 Hypothyroidism 
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 HP:0000829 Hypoparathyroidism 
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 HP:0000944 Abnormality of the metaphyses 
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 HP:0000958 Dry skin 
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 HP:0000960 Sacral dimple "A subtype of `skin dimples` (HP:0010781) presenting as an indentation in the skin of the intergluteal cleft ." [HPO:probinson]
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 HP:0000964 Eczema "Eczema is a form of dermatitis. The term eczema is broadly applied to a range of persistent skin conditions and can be related to a number of underlying conditions. Manifestations of eczema can include dryness and recurring skin rashes with redness, skin edema, itching and dryness, crusting, flaking, blistering, cracking, oozing, or bleeding." [HPO:curators]
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 HP:0000965 Cutis marmorata 
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 HP:0000969 Edema "An abnormal accumulation of fluid beneath the skin, or in one or more cavities of the body. Edema may be related to one or more of the following factors: 1) increased capillary hydrostatic pressure, 2) decreased osmotic pressure of plasma, 3) decreased tissue tension and lymphatic drainage, 4) increased osmotic pressure of tissue fluids, and 5) increased capillary permeability." [HPO:curators]
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 HP:0000989 Pruritus "Pruritus is an itch or a sensation that makes a person want to scratch. This term refers to an abnormally increased disposition to experience pruritus." [HPO:curators]
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 HP:0000992 Photosensitivity "An increased sensitivity of the skin to light. Photosensitivity may result in a rash upon exposure to the sun (which is known as photodermatosis). Photosensitivity can be diagnosed by phototests in which light is shone on small areas of skin." [HPO:curators]
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 HP:0001000 Abnormality of skin pigmentation 
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 HP:0001019 Erythroderma "An inflammatory exfoliative dermatosis involving nearly all of the surface of the skin. Erythroderma develops suddenly. A patchy erythema may generalize and spread to affect most of the skin. Scaling may appear in 2-6 days and be accompanied by hot, red, dry skin, malaise, and fever." [HPO:probinson]
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 HP:0001072 Thickened skin 
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 HP:0001156 Brachydactyly 
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 HP:0001231 Abnormality of the fingernails "An abnormality of the `fingernails` (FMA:54327)." [HPO:probinson]
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 HP:0001249 Mental retardation 
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 HP:0001250 Seizures "Seizures are an intermittent `abnormality of the central nervous system` (FMA:HP:0002011) due to a sudden, excessive, disorderly discharge of cerebral neurons and characterized clinically by some combination of disturbance of sensation, loss of consciousness, impairment of psychic function, or convulsive movements." [HPO:probinson]
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 HP:0001263 Developmental retardation "A delay in the achievement of motor or mental milestones manifested prior to age 18 and generally associated with lifelong mental and/or physical impairments." [HPO:curators]
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 HP:0001363 Craniosynostosis "Craniosynostosis refers to the premature closure of the cranial sutures. Primary craniosynostosis refers to the closure of one or more sutures due to abnormalities in skull development, and secondary craniosynostosis results from failure of brain growth." [HPO:curators]
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 HP:0001508 Failure to thrive 
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 HP:0001510 Growth retardation 
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 HP:0001511 Intrauterine growth retardation 
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 HP:0001596 Alopecia "Loss of hair from the head or body." [HPO:curators]
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 HP:0001744 Splenomegaly "An abnormal enlargement of the spleen." [HPO:curators]
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 HP:0001770 Toe syndactyly "Webbing or fusion of the toes, involving soft parts only or including bone structure. Bony fusions are revered to as "bony" Syndactyly if the fusion occurs in a radio-ulnar axis. Fusions of bones of the toes in a proximo-distal axis are refered to as "Symphalangism"." [HPO:curators]
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 HP:0001773 Short, broad feet "Abnormally short and wide feet." [HPO:curators]
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 HP:0001800 Hypoplastic toenails "Underdeveloped toenails." [HPO:curators]
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 HP:0001831 Brachydactyly (feet) 
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 HP:0001840 Metatarsus varus "Metatarsus varus (adductus) is one of the most common foot deformities, that is defined as a transverse plane deformity in Lisfranc s (tarsometatarsal) joints in which the metatarsals are deviated medially. The relationship between talus and calcaneus is normal. On inspection the toes angle abruptly towards the midline, creating a C-shaped lateral foot border with a prominent styloid process of the 5th metatarsal. The result is that the forefoot is twisted inwards relative to the heel, so that the sole faces the midline." [HPO:curators]
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 HP:0001852 Gap between first and second toes "The presence of a larger than normal gap between the first and second toes related to medial displacement of the first toe." [HPO:curators]
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 HP:0001873 Thrombocytopenia 
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 HP:0001874 Abnormality of neutrophil 
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 HP:0001876 Pancytopenia 
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 HP:0001880 Eosinophilia "Increased count of eosinophile granulocytes in the blood." [HPO:sdoelken]
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 HP:0001903 Anemia 
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 HP:0001945 Fever 
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 HP:0001974 Leukocytosis "An abnormal increase in the number of `leukocytes` (CL:0000738) in the `blood` (FMA:9670)." [HPO:probinson]
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 HP:0002024 Malabsorption 
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 HP:0002025 Anal stenosis "Abnormal narrowing of the anal opening." [HPO:curators]
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 HP:0002028 Chronic diarrhea 
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 HP:0002035 Rectal prolapse 
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 HP:0002090 Pneumonia 
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 HP:0002093 Respiratory insufficiency 
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 HP:0002099 Asthma "Asthma is characterized by increased responsiveness of the tracheobronchial tree to multiple stimuli, leading to narrowing of the air passages with resultant dyspnea, cough, and wheezing." [HPO:curators]
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 HP:0002209 Sparse scalp hair "Sparseness of the `head hair` (FMA:54241)." [HPO:probinson]
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 HP:0002213 Fine hair 
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 HP:0002240 Hepatomegaly "An abnormal enlargment of the liver." [HPO:curators]
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 HP:0002488 Acute leukemia 
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 HP:0002650 Scoliosis "The presence of an abnormal lateral curvature of the spine." [HPO:curators]
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 HP:0002665 Lymphoma "A cancer originating in lymphocytes and presenting as a solid tumor of lymhpoid cells." [HPO:curators]
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 HP:0002716 Lymphadenopathy 
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 HP:0002719 Recurrent infections 
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 HP:0002750 Delayed skeletal maturation "A decreased rate of skeletal maturation. Delayed skeletal maturation can be diagnosed on the basis of an estimation of the bone age from radiographs of specific bones in the human body." [HPO:curators]
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 HP:0002960 Autoimmune disease 
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 HP:0003220 Tendency to chromosomal breakage "A type of chromosomal aberration characterized by an increased susceptibility to chromosomal breakage induced by treatment of cultured lymphocytes with agents such as chemical mutagens, irradiation, and alkylating agents." [HPO:curators]
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 HP:0003298 Spina bifida occulta "The closed form of spina bifida." [HPO:curators]
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 HP:0003683 Large beaked nose 
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 HP:0004209 Clinodactyly of the 5th finger "Clinodactyly refers to a bending or curvature of the `fifth finger` (FMA:24949) in the radial direction (i.e., towards the 4th finger)." [HPO:curators]
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 HP:0004322 Decreased body height "A height below that which is expected according to age and gender norms. Although there is no universally accepted definition of short stature, many refer to "short stature" as height more than 2 standard deviations below the mean for age and gender (or below the 3rd percentile for age and gender dependent norms)." [HPO:curators]
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 HP:0004332 Abnormality of lymphocytes 
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 HP:0004422 Biparietal narrowing "A narrowing of the biparietal diameter (i.e., of the transverse distance between the protuberances of the two parietal bones of the skull)." [HPO:curators]
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 HP:0004430 Severe combined immunodeficiency "Severe combine immunodeficiency (SCID) is a primary immune deficiency that is characterized by a severe defect in both the T- and B-lymphocyte systems." [HPO:curators]
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 HP:0005280 Depressed nasal root and bridge 
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 HP:0005338 Sparse lateral eyebrows 
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 HP:0005692 Joint hyperflexibility 
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 HP:0005978 Noninsulin-dependent diabetes mellitus 
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 HP:0006721 Acute lymphatic leukemia "A form of acute leukemia characterized by excess lympoblasts." [HPO:curators]
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 HP:0007018 Attention deficit hyperactivity disorder "Attention deficit hyperactivity disorder (ADHD) manifests at age 2-3 years or by first grade at the latest. The main symptoms are distractibility, impulsivity, hyperactivity, and often trouble organizing tasks and projects, difficulty going to sleep, and social problems from being aggressive, loud, or impatient." [HPO:curators]
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 HP:0007370 Aplasia/Hypoplasia of the corpus callosum "Absence or underdevelopment of the corpus callosum." [HPO:curators]
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 HP:0007549 Desquamation of skin soon after birth 
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 HP:0008736 Hypoplasia of penis 
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 HP:0008897 Growth retardation, progressive 
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 HP:0009601 Aplasia/Hypoplasia of the thumb "Hypoplastic/small or absent thumb." [HPO:curators]
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 HP:0009738 Abnormal antihelix "An abnormal form of the antihelix, which is the curved prominence of cartilage, parallel with and in front of the helix, and which divides into the crura antihelicis, between which is a triangular depression, the fossa triangularis." [HPO:curators]
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 HP:0009891 Hypoplasia of the supraorbital ridges "Underdevelopment of the supraorbital ridges." [HPO:curators]
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 HP:0010783 Erythema "Redness of the skin, caused by hyperemia of the capillaries in the lower layers of the skin." [HPO:probinson]
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 HP:0011304 Broad thumb "Increased thumb width without increased dorso-ventral dimension." [pmid:19125433]
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 HP:0030680 Abnormality of cardiovascular system morphology "Any structural anomaly of the heart and great vessels." []
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 HP:0100585 Teleangiectasia of the skin 
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 HP:0100646 Thyroiditis "`Inflammation` (MPATH:212) of the `thyroid gland` (FMA:9603)." [HPO:probinson]
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 HP:0100806 Sepsis 
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 HP:0100840 Aplasia/Hypoplasia of the eyebrow "Absence or underdevelopment of the eyebrow." [HPO:probinson]
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 HP:0200055 Small hands 
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSG00000152422 XRCC4 / Q13426 / X-ray repair cross complementing 4  / complex
 ENSG00000196419 XRCC6 / P12956 / X-ray repair cross complementing 6  / complex / reaction
 ENSG00000079246 XRCC5 / P13010 / X-ray repair cross complementing 5  / reaction / complex
 ENSG00000166169 POLL / Q9UGP5 / DNA polymerase lambda  / reaction
 ENSG00000152457 Q96SD1 / DCLRE1C / DNA cross-link repair 1C  / reaction
 ENSG00000253729 PRKDC / P78527 / protein kinase, DNA-activated, catalytic polypeptide  / reaction
 ENSG00000122678 POLM / Q9NP87 / DNA polymerase mu  / reaction
 ENSG00000187736 NHEJ1 / Q9H9Q4 / non-homologous end joining factor 1  / reaction






 

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