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Contents
Function
LIG4 Syndrome
Available structures
Haematopoietic stem cell PDB Ortholog search: PDBe (https://www.ebi.ac.uk/pdbe/search
aging
Results.html?display=both&term=Q8BTF7%20or%20P4991
Interactions 7) RCSB (http://www.rcsb.org/pdb/search/smartSubquery.d
Mechanism o?smartSearchSubtype=UpAccessionIdQuery&accessionId
References List=Q8BTF7,P49917)
LIG4 Syndrome
In humans, deficiency of DNA ligase
4 results in a clinical condition
known as LIG4 syndrome. This
syndrome is characterized by cellular
radiation sensitivity, growth Chr. Chromosome 13 (human)[1]
retardation, developmental delay,
microcephaly, facial dysmorphisms,
increased disposition to leukemia,
variable degrees of
Band 13q33.3 Start 108,207,439 bp[1]
immunodeficiency and reduced
number of blood cells.[7][8] End 108,218,368 bp[1]
Interactions
More reference expression data (http://biogps.org/gene/3981/)
LIG4 has been shown to interact
with XRCC4 via its BRCT Gene ontology
domain.[12][6] This interaction Molecular • nucleotide binding (http://amigo.geneontology.org/a
stabilizes LIG4 protein in cells; cells function migo/term/GO:0000166)
that are deficient for XRCC4, such
• metal ion binding (http://amigo.geneontology.org/ami
as XR-1 cells, have reduced levels of
go/term/GO:0046872)
LIG4.[13]
• protein C-terminus binding (http://amigo.geneontolo
gy.org/amigo/term/GO:0008022)
Mechanism • GO:0001948 protein binding (http://amigo.geneontol
ogy.org/amigo/term/GO:0005515,)
LIG4 is an ATP-dependent DNA
ligase. LIG4 uses ATP to adenylate
• ATP binding (http://amigo.geneontology.org/amigo/te
itself and then transfers the AMP rm/GO:0005524)
group to the 5' phosphate of one • DNA ligase (ATP) activity (http://amigo.geneontology.
DNA end. Nucleophilic attack by the org/amigo/term/GO:0003910)
3' hydroxyl group of a second DNA • ligase activity (http://amigo.geneontology.org/amigo/t
end and release of AMP yield the erm/GO:0016874)
ligation product. Adenylation of • DNA binding (http://amigo.geneontology.org/amigo/t
LIG4 is stimulated by XRCC4 and erm/GO:0003677)
XLF.[14] • DNA ligase activity (http://amigo.geneontology.org/a
migo/term/GO:0003909)
References Cellular • nucleoplasm (http://amigo.geneontology.org/amigo/t
component erm/GO:0005654)
1. GRCh38: Ensembl release
89: ENSG00000174405 (htt • DNA ligase IV complex (http://amigo.geneontology.or
p://May2017.archive.ensemb g/amigo/term/GO:0032807)
l.org/Homo_sapiens/Gene/Su • nonhomologous end joining complex (http://amigo.g
mmary?db=core;g=ENSG000 eneontology.org/amigo/term/GO:0070419)
00174405) - Ensembl, May
2017 • condensed chromosome (http://amigo.geneontology.
org/amigo/term/GO:0000793)
2. GRCm38: Ensembl release
89: ENSMUSG00000049717 • nuclear chromosome, telomeric region (http://amigo.
(http://May2017.archive.ense geneontology.org/amigo/term/GO:0000784)
mbl.org/Mus_musculus/Gene/ • cell nucleus (http://amigo.geneontology.org/amigo/te
Summary?db=core;g=ENSM rm/GO:0005634)
USG00000049717) -
Ensembl, May 2017 • DNA-dependent protein kinase-DNA ligase 4
complex (http://amigo.geneontology.org/amigo/term/G
3. "Human PubMed Reference:"
(https://www.ncbi.nlm.nih.gov/ O:0005958)
sites/entrez?db=gene&cmd= • cytoplasm (http://amigo.geneontology.org/amigo/ter
Link&LinkName=gene_pubm m/GO:0005737)
ed&from_uid=3981). National • cytoplasmic ribonucleoprotein granule (http://amigo.
Center for Biotechnology geneontology.org/amigo/term/GO:0036464)
Information, U.S. National
Library of Medicine. Biological • nucleotide-excision repair, DNA gap filling (http://ami
4. "Mouse PubMed Reference:" process go.geneontology.org/amigo/term/GO:0006297)
(https://www.ncbi.nlm.nih.gov/ • double-strand break repair via classical
sites/entrez?db=gene&cmd= nonhomologous end joining (http://amigo.geneontolog
Link&LinkName=gene_pubm y.org/amigo/term/GO:0097680)
ed&from_uid=319583).
National Center for • response to ionizing radiation (http://amigo.geneonto
Biotechnology Information, logy.org/amigo/term/GO:0010212)
U.S. National Library of • DNA recombination (http://amigo.geneontology.org/a
Medicine. migo/term/GO:0006310)
5. "Entrez Gene: LIG4 ligase IV, • lagging strand elongation (http://amigo.geneontolog
DNA, ATP-dependent" (http y.org/amigo/term/GO:0006273)
s://www.ncbi.nlm.nih.gov/site
s/entrez?Db=gene&Cmd=Sh • DNA biosynthetic process (http://amigo.geneontolog
owDetailView&TermToSearc y.org/amigo/term/GO:0071897)
h=3981). • cellular response to lithium ion (http://amigo.geneont
ology.org/amigo/term/GO:0071285)
• single strand break repair (http://amigo.geneontolog
y.org/amigo/term/GO:0000012)
• cellular response to DNA damage stimulus (http://am
igo.geneontology.org/amigo/term/GO:0006974)
• cell division (http://amigo.geneontology.org/amigo/ter
m/GO:0051301)
• DNA replication (http://amigo.geneontology.org/amig
o/term/GO:0006260)
6. Sibanda BL, Critchlow SE, • GO:1903310 positive regulation of chromosome
Begun J, Pei XY, Jackson SP, organization (http://amigo.geneontology.org/amigo/ter
Blundell TL, Pellegrini L m/GO:2001252,)
(December 2001). "Crystal
structure of an Xrcc4-DNA
• establishment of integrated proviral latency (http://a
ligase IV complex". Nature migo.geneontology.org/amigo/term/GO:0075713)
Structural Biology. 8 (12): • cell cycle (http://amigo.geneontology.org/amigo/ter
1015–9. doi:10.1038/nsb725 m/GO:0007049)
(https://doi.org/10.1038%2Fn • response to X-ray (http://amigo.geneontology.org/a
sb725). PMID 11702069 (http
migo/term/GO:0010165)
s://pubmed.ncbi.nlm.nih.gov/1
1702069). • positive regulation of neurogenesis (http://amigo.gen
7. Rucci F, Notarangelo LD, eontology.org/amigo/term/GO:0050769)
Fazeli A, Patrizi L, Hickernell • DNA ligation involved in DNA recombination (http://a
T, Paganini T, Coakley KM, migo.geneontology.org/amigo/term/GO:0051102)
Detre C, Keszei M, Walter JE, • DNA ligation (http://amigo.geneontology.org/amigo/t
Feldman L, Cheng HL, erm/GO:0006266)
Poliani PL, Wang JH, Balter
BB, Recher M, Andersson • DNA ligation involved in DNA repair (http://amigo.ge
EM, Zha S, Giliani S, Terhorst neontology.org/amigo/term/GO:0051103)
C, Alt FW, Yan CT (February • somatic stem cell population maintenance (http://ami
2010). "Homozygous DNA go.geneontology.org/amigo/term/GO:0035019)
ligase IV R278H mutation in
• chromosome organization (http://amigo.geneontolog
mice leads to leaky SCID and
represents a model for human y.org/amigo/term/GO:0051276)
LIG4 syndrome" (https://www. • T cell receptor V(D)J recombination (http://amigo.ge
ncbi.nlm.nih.gov/pmc/articles/ neontology.org/amigo/term/GO:0033153)
PMC2840307). Proceedings • neuron apoptotic process (http://amigo.geneontolog
of the National Academy of y.org/amigo/term/GO:0051402)
Sciences of the United States
of America. 107 (7): 3024–9. • isotype switching (http://amigo.geneontology.org/ami
doi:10.1073/pnas.091486510 go/term/GO:0045190)
7 (https://doi.org/10.1073%2F • T cell differentiation in thymus (http://amigo.geneont
pnas.0914865107). ology.org/amigo/term/GO:0033077)
PMC 2840307 (https://www.n • central nervous system development (http://amigo.g
cbi.nlm.nih.gov/pmc/articles/P
eneontology.org/amigo/term/GO:0007417)
MC2840307).
PMID 20133615 (https://pubm • immunoglobulin V(D)J recombination (http://amigo.g
ed.ncbi.nlm.nih.gov/2013361 eneontology.org/amigo/term/GO:0033152)
5). • double-strand break repair via nonhomologous end
joining (http://amigo.geneontology.org/amigo/term/G
O:0006303)
• positive regulation of fibroblast proliferation (http://a
migo.geneontology.org/amigo/term/GO:0048146)
• in utero embryonic development (http://amigo.geneo
ntology.org/amigo/term/GO:0001701)
• cellular proliferation (http://amigo.geneontology.org/a
migo/term/GO:0008283)
• V(D)J recombination (http://amigo.geneontology.org/
amigo/term/GO:0033151)
• pro-B cell differentiation (http://amigo.geneontology.
org/amigo/term/GO:0002328)
8. Tilgner K, Neganova I, • DNA repair (http://amigo.geneontology.org/amigo/ter
Moreno-Gimeno I, Al-Aama m/GO:0006281)
JY, Burks D, Yung S, • response to gamma radiation (http://amigo.geneonto
Singhapol C, Saretzki G,
logy.org/amigo/term/GO:0010332)
Evans J, Gorbunova V,
Gennery A, Przyborski S, • double-strand break repair (http://amigo.geneontolo
Stojkovic M, Armstrong L, gy.org/amigo/term/GO:0006302)
Jeggo P, Lako M (August • negative regulation of neuron apoptotic process (htt
2013). "A human iPSC model p://amigo.geneontology.org/amigo/term/GO:0043524)
of Ligase IV deficiency
reveals an important role for
• cellular response to ionizing radiation (http://amigo.g
NHEJ-mediated-DSB repair eneontology.org/amigo/term/GO:0071479)
in the survival and genomic Sources:Amigo (http://amigo.geneontology.org/) / QuickGO (https://
stability of induced pluripotent www.ebi.ac.uk/QuickGO/)
stem cells and emerging
haematopoietic progenitors" Orthologs
(https://www.ncbi.nlm.nih.gov/ Species Human Mouse
pmc/articles/PMC3705601).
Cell Death and Entrez
Differentiation. 20 (8): 1089– 3981 (https://www.ncb 319583 (https://www.ncb
100. doi:10.1038/cdd.2013.44 i.nlm.nih.gov/entrez/qu i.nlm.nih.gov/entrez/quer
(https://doi.org/10.1038%2Fc ery.fcgi?db=gene&cm y.fcgi?db=gene&cmd=retr
dd.2013.44). PMC 3705601 d=retrieve&dopt=defa ieve&dopt=default&list_u
(https://www.ncbi.nlm.nih.gov/ ult&list_uids=3981&rn ids=319583&rn=1)
pmc/articles/PMC3705601). =1)
PMID 23722522 (https://pubm
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Nussenzweig A, Hoeijmakers (http://www.ensembl.o (http://www.ensembl.org/
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"Deficiencies in DNA eview?gene=ENSG00 w?gene=ENSMUSG000
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Bernstein C, Garewal H, entrez/viewer.fcgi?val= w.ncbi.nlm.nih.gov/entre
Dvorak K (2008). "Chapter 1: z/viewer.fcgi?val=NM_17
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NM_002312 (https://ww 6953)
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www.ncbi.nlm.nih.gov/ent
ovapublishers.com/catalog/pr ez/viewer.fcgi?val=NM_
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43247). In Kimura H, Suzuki 001377042)
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A (eds.). New Research on
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Inc. pp. 1–47. ISBN 978-1- 206937)
60456-581-2.
11. Nijnik A, Woodbine L, NM_001330595 (https://
Marchetti C, Dawson S, www.ncbi.nlm.nih.gov/
Lambe T, Liu C, Rodrigues entrez/viewer.fcgi?val=
NP, Crockford TL, Cabuy E, NM_001330595)
Vindigni A, Enver T, Bell JI,
Slijepcevic P, Goodnow CC, NM_001352598 (https://
Jeggo PA, Cornall RJ (June www.ncbi.nlm.nih.gov/
2007). "DNA repair is limiting entrez/viewer.fcgi?val=
for haematopoietic stem cells NM_001352598)
during ageing". Nature. 447
(7145): 686–90. NM_001352599 (http
doi:10.1038/nature05875 (htt
s://www.ncbi.nlm.nih.g
ps://doi.org/10.1038%2Fnatur
ov/entrez/viewer.fcgi?
e05875). PMID 17554302 (htt
ps://pubmed.ncbi.nlm.nih.gov/ val=NM_001352599)
17554302). NM_001352600 (http
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12. Deshpande RA, Wilson TE
ov/entrez/viewer.fcgi?
(October 2007). "Modes of
interaction among yeast Nej1, val=NM_001352600)
Lif1 and Dnl4 proteins and NM_001352601 (http
comparison to human XLF, s://www.ncbi.nlm.nih.g
XRCC4 and Lig4" (https://ww ov/entrez/viewer.fcgi?
w.ncbi.nlm.nih.gov/pmc/articl val=NM_001352601)
es/PMC2064958). DNA NM_001352602 (http
Repair. 6 (10): 1507–16. s://www.ncbi.nlm.nih.g
doi:10.1016/j.dnarep.2007.04 ov/entrez/viewer.fcgi?
.014 (https://doi.org/10.1016% val=NM_001352602)
2Fj.dnarep.2007.04.014). NM_001352603 (http
PMC 2064958 (https://www.n s://www.ncbi.nlm.nih.g
cbi.nlm.nih.gov/pmc/articles/P ov/entrez/viewer.fcgi?
MC2064958). val=NM_001352603)
PMID 17567543 (https://pubm NM_001352604 (http
ed.ncbi.nlm.nih.gov/1756754 s://www.ncbi.nlm.nih.g
3). ov/entrez/viewer.fcgi?
13. Bryans M, Valenzano MC, val=NM_001352604)
Stamato TD (January 1999). NM_001379095 (http
"Absence of DNA ligase IV s://www.ncbi.nlm.nih.g
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evidence for stabilization by val=NM_001379095)
XRCC4". Mutation Research.
433 (1): 53–8.
doi:10.1016/s0921- RefSeq NP_001091738 (https://
8777(98)00063-9 (https://doi. (protein) www.ncbi.nlm.nih.gov/ NP_795927 (https://www.
org/10.1016%2Fs0921-877 entrez/viewer.fcgi?val= ncbi.nlm.nih.gov/entrez/vi
7%2898%2900063-9). ewer.fcgi?val=NP_79592
NP_001091738)
PMID 10047779 (https://pubm 7)
ed.ncbi.nlm.nih.gov/1004777 NP_001317524 (https://
NP_001363971 (https://w
9). www.ncbi.nlm.nih.gov/
ww.ncbi.nlm.nih.gov/entr
entrez/viewer.fcgi?val=
ez/viewer.fcgi?val=NP_0
NP_001317524) 01363971)
NP_002303 (https://ww
w.ncbi.nlm.nih.gov/entr
ez/viewer.fcgi?val=NP_
002303)
14. Mahaney BL, Hammel M, NP_996820 (https://ww
Meek K, Tainer JA, Lees- w.ncbi.nlm.nih.gov/entr
Miller SP (February 2013). ez/viewer.fcgi?val=NP_
"XRCC4 and XLF form long
996820)
helical protein filaments
suitable for DNA end NP_001339527 (https://
protection and alignment to www.ncbi.nlm.nih.gov/
facilitate DNA double strand entrez/viewer.fcgi?val=
break repair" (https://www.ncb NP_001339527)
i.nlm.nih.gov/pmc/articles/PM
C3725335). Biochemistry and NP_001339528 (http
Cell Biology. 91 (1): 31–41.
s://www.ncbi.nlm.nih.g
doi:10.1139/bcb-2012-0058
ov/entrez/viewer.fcgi?
(https://doi.org/10.1139%2Fb
cb-2012-0058). val=NP_001339528)
PMC 3725335 (https://www.n NP_001339529 (http
cbi.nlm.nih.gov/pmc/articles/P s://www.ncbi.nlm.nih.g
MC3725335). ov/entrez/viewer.fcgi?
PMID 23442139 (https://pubm val=NP_001339529)
ed.ncbi.nlm.nih.gov/2344213 NP_001339530 (http
9). s://www.ncbi.nlm.nih.g
ov/entrez/viewer.fcgi?
val=NP_001339530)
Further reading NP_001339531 (http
s://www.ncbi.nlm.nih.g
Wei YF, Robins P, Carter K,
Caldecott K, Pappin DJ, Yu ov/entrez/viewer.fcgi?
GL, Wang RP, Shell BK, val=NP_001339531)
Nash RA, Schär P (June NP_001339532 (http
1995). "Molecular cloning s://www.ncbi.nlm.nih.g
and expression of human ov/entrez/viewer.fcgi?
cDNAs encoding a novel val=NP_001339532)
DNA ligase IV and DNA NP_001339533 (http
ligase III, an enzyme active in s://www.ncbi.nlm.nih.g
DNA repair and ov/entrez/viewer.fcgi?
recombination" (https://www.n val=NP_001339533)
cbi.nlm.nih.gov/pmc/articles/P NP_001366024 (http
MC230553). Molecular and s://www.ncbi.nlm.nih.g
Cellular Biology. 15 (6): ov/entrez/viewer.fcgi?
3206–16. val=NP_001366024)
doi:10.1128/mcb.15.6.3206 (h
ttps://doi.org/10.1128%2Fmc
b.15.6.3206). PMC 230553 (h Location Chr 13: 108.21 – 108.22 Chr 8: 9.97 – 9.98 Mb (http
ttps://www.ncbi.nlm.nih.gov/p (UCSC) Mb (https://genome.ucsc. s://genome.ucsc.edu/cgi-bin/
mc/articles/PMC230553). edu/cgi-bin/hgTracks?org hgTracks?org=Mouse&db=m
PMID 7760816 (https://pubme =Human&db=hg38&positi m0&position=chr8:9969049-9
d.ncbi.nlm.nih.gov/7760816). on=chr13:108207439-108 977686)
218368)
PubMed [3] [4]
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