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Protein

DNA ligase 4

Gene

Lig4

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Efficiently joins single-strand breaks in a double-stranded polydeoxynucleotide in an ATP-dependent reaction. Involved in DNA nonhomologous end joining (NHEJ) required for double-strand break repair and V(D)J recombination. The LIG4-XRCC4 complex is responsible for the NHEJ ligation step, and XRCC4 enhances the joining activity of LIG4. Binding of the LIG4-XRCC4 complex to DNA ends is dependent on the assembly of the DNA-dependent protein kinase complex DNA-PK to these DNA ends.By similarity

Catalytic activityi

ATP + (deoxyribonucleotide)(n)-3'-hydroxyl + 5'-phospho-(deoxyribonucleotide)(m) = (deoxyribonucleotide)(n+m) + AMP + diphosphate.PROSITE-ProRule annotation

Cofactori

Mg2+By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei271ATPBy similarity1
Active sitei273N6-AMP-lysine intermediatePROSITE-ProRule annotation1
Binding sitei278ATPBy similarity1
Binding sitei293ATPBy similarity1
Metal bindingi331Magnesium 1Sequence analysis1
Metal bindingi427Magnesium 2Sequence analysis1
Binding sitei432ATPBy similarity1
Binding sitei443ATPBy similarity1
Binding sitei449ATPBy similarity1

GO - Molecular functioni

  • ATP binding Source: MGI
  • DNA binding Source: MGI
  • DNA ligase (ATP) activity Source: MGI
  • DNA ligase activity Source: MGI
  • ligase activity Source: MGI
  • metal ion binding Source: UniProtKB-KW
  • protein C-terminus binding Source: MGI

GO - Biological processi

  • cell cycle Source: UniProtKB-KW
  • cell division Source: UniProtKB-KW
  • cell proliferation Source: MGI
  • cellular response to lithium ion Source: Ensembl
  • central nervous system development Source: MGI
  • chromosome organization Source: MGI
  • DNA biosynthetic process Source: InterPro
  • DNA ligation Source: MGI
  • DNA ligation involved in DNA recombination Source: MGI
  • DNA ligation involved in DNA repair Source: MGI
  • DNA repair Source: MGI
  • DNA replication Source: UniProtKB-KW
  • double-strand break repair Source: MGI
  • double-strand break repair via classical nonhomologous end joining Source: MGI
  • double-strand break repair via nonhomologous end joining Source: BHF-UCL
  • immunoglobulin V(D)J recombination Source: MGI
  • in utero embryonic development Source: MGI
  • isotype switching Source: MGI
  • negative regulation of neuron apoptotic process Source: MGI
  • neuron apoptotic process Source: MGI
  • nucleotide-excision repair, DNA gap filling Source: MGI
  • positive regulation of chromosome organization Source: MGI
  • positive regulation of fibroblast proliferation Source: MGI
  • positive regulation of neurogenesis Source: MGI
  • pro-B cell differentiation Source: MGI
  • response to gamma radiation Source: MGI
  • response to ionizing radiation Source: MGI
  • response to X-ray Source: MGI
  • single strand break repair Source: MGI
  • somatic stem cell population maintenance Source: MGI
  • T cell differentiation in thymus Source: MGI
  • T cell receptor V(D)J recombination Source: MGI
  • V(D)J recombination Source: MGI
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Cell cycle, Cell division, DNA damage, DNA recombination, DNA repair, DNA replication

Keywords - Ligandi

ATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-MMU-5693571. Nonhomologous End-Joining (NHEJ).

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligase 4 (EC:6.5.1.1PROSITE-ProRule annotation)
Alternative name(s):
DNA ligase IV
Polydeoxyribonucleotide synthase [ATP] 4
Gene namesi
Name:Lig4
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 8

Organism-specific databases

MGIiMGI:1335098. Lig4.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000595771 – 911DNA ligase 4Add BLAST911

Proteomic databases

MaxQBiQ8BTF7.
PaxDbiQ8BTF7.
PRIDEiQ8BTF7.

PTM databases

iPTMnetiQ8BTF7.
PhosphoSitePlusiQ8BTF7.

Expressioni

Gene expression databases

BgeeiENSMUSG00000049717.
CleanExiMM_LIG4.
GenevisibleiQ8BTF7. MM.

Interactioni

Subunit structurei

Interacts with XRCC4. The LIG4-XRCC4 complex has probably a 1:2 stoichiometry. The LIG4-XRCC4 complex associates in a DNA-dependent manner with the DNA-PK complex composed of PRKDC, XRCC6/Ku70 and XRCC5/Ku86 to form the core non-homologous end joining (NHEJ) complex. Additional components of the NHEJ complex include NHEJ1/XLF and PAXX. Interacts with APLF.By similarity

GO - Molecular functioni

Protein-protein interaction databases

BioGridi235376. 2 interactors.
STRINGi10090.ENSMUSP00000093130.

Structurei

3D structure databases

ProteinModelPortaliQ8BTF7.
SMRiQ8BTF7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini654 – 743BRCT 1PROSITE-ProRule annotationAdd BLAST90
Domaini808 – 911BRCT 2PROSITE-ProRule annotationAdd BLAST104

Sequence similaritiesi

Belongs to the ATP-dependent DNA ligase family.Curated
Contains 2 BRCT domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0966. Eukaryota.
COG1793. LUCA.
GeneTreeiENSGT00860000133881.
HOGENOMiHOG000007831.
HOVERGENiHBG005516.
InParanoidiQ8BTF7.
KOiK10777.
OMAiIGEDHSR.
OrthoDBiEOG091G03K0.
TreeFamiTF312980.

Family and domain databases

CDDicd00027. BRCT. 2 hits.
Gene3Di1.10.3260.10. 1 hit.
3.40.50.10190. 2 hits.
InterProiIPR001357. BRCT_dom.
IPR000977. DNA_ligase_ATP-dep.
IPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR012308. DNA_ligase_ATP-dep_N.
IPR021536. DNA_ligase_IV_dom.
IPR029710. LIG4.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PANTHERiPTHR10459:SF7. PTHR10459:SF7. 1 hit.
PfamiPF00533. BRCT. 1 hit.
PF16589. BRCT_2. 1 hit.
PF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
PF11411. DNA_ligase_IV. 1 hit.
[Graphical view]
SMARTiSM00292. BRCT. 2 hits.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF52113. SSF52113. 2 hits.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS50172. BRCT. 2 hits.
PS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8BTF7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASSQTSQTV AAHVPFADLC STLERIQKGK DRAEKIRHFK EFLDSWRKFH
60 70 80 90 100
DALHKNRKDV TDSFYPAMRL ILPQLERERM AYGIKETMLA KLYIELLNLP
110 120 130 140 150
REGKDAQKLL NYRTPSGART DAGDFAMIAY FVLKPRCLQK GSLTIQQVNE
160 170 180 190 200
LLDLVASNNS GKKKDLVKKS LLQLITQSSA LEQKWLIRMI IKDLKLGISQ
210 220 230 240 250
QTIFSIFHND AVELHNVTTD LEKVCRQLHD PSVGLSDISI TLFSAFKPML
260 270 280 290 300
AAVADVERVE KDMKQQSFYI ETKLDGERMQ MHKDGALYRY FSRNGYNYTD
310 320 330 340 350
QFGESPQEGS LTPFIHNAFG TDVQACILDG EMMAYNPTTQ TFMQKGVKFD
360 370 380 390 400
IKRMVEDSGL QTCYSVFDVL MVNKKKLGRE TLRKRYEILS STFTPIQGRI
410 420 430 440 450
EIVQKTQAHT KKEVVDALND AIDKREEGIM VKHPLSIYKP DKRGEGWLKI
460 470 480 490 500
KPEYVSGLMD ELDVLIVGGY WGKGSRGGMM SHFLCAVAET PPPGDRPSVF
510 520 530 540 550
HTLCRVGSGY TMKELYDLGL KLAKYWKPFH KKSPPSSILC GTEKPEVYIE
560 570 580 590 600
PQNSVIVQIK AAEIVPSDMY KTGSTLRFPR IEKIRDDKEW HECMTLGDLE
610 620 630 640 650
QLRGKASGKL ATKHLHVGDD DEPREKRRKP ISKTKKAIRI IEHLKAPNLS
660 670 680 690 700
NVNKVSNVFE DVEFCVMSGL DGYPKADLEN RIAEFGGYIV QNPGPDTYCV
710 720 730 740 750
IAGSENVRVK NIISSDKNDV VKPEWLLECF KTKTCVPWQP RFMIHMCPST
760 770 780 790 800
KQHFAREYDC YGDSYFVDTD LDQLKEVFLG IKPSEQQTPE EMAPVIADLE
810 820 830 840 850
CRYSWDHSPL SMFRHYTIYL DLYAVINDLS SRIEATRLGI TALELRFHGA
860 870 880 890 900
KVVSCLSEGV SHVIIGEDQR RVTDFKIFRR MLKKKFKILQ ESWVSDSVDK
910
GELQEENQYL L
Length:911
Mass (Da):104,120
Last modified:October 3, 2012 - v2
Checksum:i20CDD0F6465355A2
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti268F → L in BAC26747 (PubMed:16141072).Curated1
Sequence conflicti758Y → C in BAE28333 (PubMed:16141072).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK030029 mRNA. Translation: BAC26747.1.
AK148081 mRNA. Translation: BAE28333.1.
AC138397 Genomic DNA. No translation available.
CH466566 Genomic DNA. Translation: EDL22038.1.
CH466566 Genomic DNA. Translation: EDL22040.1.
CCDSiCCDS22092.1.
RefSeqiNP_795927.2. NM_176953.3.
XP_017168343.1. XM_017312854.1.
UniGeneiMm.80584.

Genome annotation databases

EnsembliENSMUST00000095476; ENSMUSP00000093130; ENSMUSG00000049717.
ENSMUST00000170033; ENSMUSP00000130807; ENSMUSG00000049717.
GeneIDi319583.
KEGGimmu:319583.
UCSCiuc009kul.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK030029 mRNA. Translation: BAC26747.1.
AK148081 mRNA. Translation: BAE28333.1.
AC138397 Genomic DNA. No translation available.
CH466566 Genomic DNA. Translation: EDL22038.1.
CH466566 Genomic DNA. Translation: EDL22040.1.
CCDSiCCDS22092.1.
RefSeqiNP_795927.2. NM_176953.3.
XP_017168343.1. XM_017312854.1.
UniGeneiMm.80584.

3D structure databases

ProteinModelPortaliQ8BTF7.
SMRiQ8BTF7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi235376. 2 interactors.
STRINGi10090.ENSMUSP00000093130.

PTM databases

iPTMnetiQ8BTF7.
PhosphoSitePlusiQ8BTF7.

Proteomic databases

MaxQBiQ8BTF7.
PaxDbiQ8BTF7.
PRIDEiQ8BTF7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000095476; ENSMUSP00000093130; ENSMUSG00000049717.
ENSMUST00000170033; ENSMUSP00000130807; ENSMUSG00000049717.
GeneIDi319583.
KEGGimmu:319583.
UCSCiuc009kul.1. mouse.

Organism-specific databases

CTDi3981.
MGIiMGI:1335098. Lig4.

Phylogenomic databases

eggNOGiKOG0966. Eukaryota.
COG1793. LUCA.
GeneTreeiENSGT00860000133881.
HOGENOMiHOG000007831.
HOVERGENiHBG005516.
InParanoidiQ8BTF7.
KOiK10777.
OMAiIGEDHSR.
OrthoDBiEOG091G03K0.
TreeFamiTF312980.

Enzyme and pathway databases

ReactomeiR-MMU-5693571. Nonhomologous End-Joining (NHEJ).

Miscellaneous databases

PROiQ8BTF7.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000049717.
CleanExiMM_LIG4.
GenevisibleiQ8BTF7. MM.

Family and domain databases

CDDicd00027. BRCT. 2 hits.
Gene3Di1.10.3260.10. 1 hit.
3.40.50.10190. 2 hits.
InterProiIPR001357. BRCT_dom.
IPR000977. DNA_ligase_ATP-dep.
IPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR012308. DNA_ligase_ATP-dep_N.
IPR021536. DNA_ligase_IV_dom.
IPR029710. LIG4.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PANTHERiPTHR10459:SF7. PTHR10459:SF7. 1 hit.
PfamiPF00533. BRCT. 1 hit.
PF16589. BRCT_2. 1 hit.
PF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
PF11411. DNA_ligase_IV. 1 hit.
[Graphical view]
SMARTiSM00292. BRCT. 2 hits.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF52113. SSF52113. 2 hits.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS50172. BRCT. 2 hits.
PS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDNLI4_MOUSE
AccessioniPrimary (citable) accession number: Q8BTF7
Secondary accession number(s): G3UWC4, Q3UG76
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 7, 2006
Last sequence update: October 3, 2012
Last modified: November 30, 2016
This is version 123 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.