Gene description for LIG4
Gene name ligase IV, DNA, ATP-dependent
Gene symbol LIG4
Other names/aliases LIG4S
Species Homo sapiens
 Database cross references - LIG4
ExoCarta ExoCarta_3981
Vesiclepedia VP_3981
Entrez Gene 3981
HGNC 6601
MIM 601837
UniProt P49917  
 LIG4 identified in exosomes derived from the following tissue/cell type
Mesenchymal stem cells 36408942    
 Gene ontology annotations for LIG4
Molecular Function
    magnesium ion binding GO:0000287 IDA
    DNA binding GO:0003677 IBA
    DNA binding GO:0003677 IDA
    DNA ligase activity GO:0003909 IDA
    DNA ligase activity GO:0003909 TAS
    DNA ligase (ATP) activity GO:0003910 IBA
    DNA ligase (ATP) activity GO:0003910 IDA
    DNA ligase (ATP) activity GO:0003910 IMP
    protein binding GO:0005515 IPI
    ATP binding GO:0005524 IBA
    ligase activity GO:0016874 IDA
Biological Process
    single strand break repair GO:0000012 IDA
    in utero embryonic development GO:0001701 ISS
    pro-B cell differentiation GO:0002328 ISS
    DNA ligation GO:0006266 IDA
    nucleotide-excision repair, DNA gap filling GO:0006297 IBA
    nucleotide-excision repair, DNA gap filling GO:0006297 IDA
    double-strand break repair GO:0006302 IDA
    double-strand break repair GO:0006302 ISS
    double-strand break repair via nonhomologous end joining GO:0006303 IBA
    double-strand break repair via nonhomologous end joining GO:0006303 IDA
    double-strand break repair via nonhomologous end joining GO:0006303 IGI
    double-strand break repair via nonhomologous end joining GO:0006303 IMP
    double-strand break repair via nonhomologous end joining GO:0006303 TAS
    central nervous system development GO:0007417 ISS
    cell population proliferation GO:0008283 ISS
    response to X-ray GO:0010165 IMP
    response to gamma radiation GO:0010332 ISS
    neurogenesis GO:0022008 IEA
    T cell differentiation in thymus GO:0033077 ISS
    V(D)J recombination GO:0033151 IDA
    immunoglobulin V(D)J recombination GO:0033152 IBA
    T cell receptor V(D)J recombination GO:0033153 ISS
    somatic stem cell population maintenance GO:0035019 ISS
    negative regulation of neuron apoptotic process GO:0043524 ISS
    isotype switching GO:0045190 ISS
    fibroblast proliferation GO:0048144 IEA
    positive regulation of fibroblast proliferation GO:0048146 ISS
    positive regulation of neurogenesis GO:0050769 ISS
    DNA ligation involved in DNA recombination GO:0051102 ISS
    DNA ligation involved in DNA repair GO:0051103 IDA
    DNA ligation involved in DNA repair GO:0051103 ISS
    chromosome organization GO:0051276 ISS
    cell division GO:0051301 IEA
    neuron apoptotic process GO:0051402 ISS
    cellular response to lithium ion GO:0071285 IEA
    cellular response to ionizing radiation GO:0071479 IGI
    DNA biosynthetic process GO:0071897 IEA
    stem cell proliferation GO:0072089 IEA
    establishment of integrated proviral latency GO:0075713 TAS
    double-strand break repair via classical nonhomologous end joining GO:0097680 IMP
    DN2 thymocyte differentiation GO:1904155 IEA
    positive regulation of chromosome organization GO:2001252 IMP
Subcellular Localization
    chromosome, telomeric region GO:0000781 IC
    condensed chromosome GO:0000793 IDA
    nucleus GO:0005634 IDA
    nucleus GO:0005634 IDA
    nucleoplasm GO:0005654 IDA
    nucleoplasm GO:0005654 TAS
    DNA-dependent protein kinase-DNA ligase 4 complex GO:0005958 IBA
    DNA-dependent protein kinase-DNA ligase 4 complex GO:0005958 IDA
    DNA-dependent protein kinase-DNA ligase 4 complex GO:0005958 ISS
    DNA ligase IV complex GO:0032807 IBA
    DNA ligase IV complex GO:0032807 IMP
    intracellular membrane-bounded organelle GO:0043231 IDA
    nonhomologous end joining complex GO:0070419 IDA
 Experiment description of studies that identified LIG4 in exosomes
1
Experiment ID 488
MISEV standards
✔
EM
Biophysical techniques
✔
CD9|CD81|CD63|GAPDH|SDCBP|LAMP1|TFRC|UCHL1|FLOT2|LAMP2|FLOT1|ICAM1|RAB5B|CD151|RAB35|TSG101|RAB5A|CD82
Enriched markers
✔
CANX
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Homo sapiens
Experiment description Quantitative proteomic analysis of exosomes from umbilical cord mesenchymal stem cells and rat bone marrow stem cells
Authors "Xu X, Yin F, Guo M, Gan G, Lin G, Wen C, Wang J, Song P, Wang J, Qi ZQ, Zhong CQ."
Journal name Proteomics
Publication year 2023
Sample Mesenchymal stem cells
Sample name UCMSC
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
 Protein-protein interactions for LIG4
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 EIF4G3 8672
Two-hybrid Homo sapiens
2 ATR  
Protein-peptide Homo sapiens
3 SLFN11 91607
Affinity Capture-MS Homo sapiens
4 LDHA 3939
Affinity Capture-MS Homo sapiens
5 NPC2 10577
Two-hybrid Homo sapiens
6 PSMA6 5687
Two-hybrid Homo sapiens
7 GSTP1 2950
Affinity Capture-MS Homo sapiens
8 MCRS1  
Two-hybrid Homo sapiens
9 OGFOD1  
Two-hybrid Homo sapiens
10 ALMS1  
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
11 RPS19BP1  
Two-hybrid Homo sapiens
12 CSNK1A1 1452
Affinity Capture-MS Homo sapiens
13 LAP3 51056
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
14 CAP1 10487
Two-hybrid Homo sapiens
15 EIF2AK1  
Two-hybrid Homo sapiens
16 STRN3 29966
Affinity Capture-MS Homo sapiens
17 ATM 472
Protein-peptide Homo sapiens
18 EIF4A1 1973
Two-hybrid Homo sapiens
19 SRSF2 6427
Two-hybrid Homo sapiens
20 AFTPH  
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
21 PRKDC 5591
Protein-peptide Homo sapiens
Biochemical Activity Homo sapiens
Affinity Capture-Western Homo sapiens
22 KDELR1 10945
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
23 GRHPR 9380
Two-hybrid Homo sapiens
24 SYCP3  
Two-hybrid Homo sapiens
25 SNX3 8724
Two-hybrid Homo sapiens
26 WDR20 91833
Two-hybrid Homo sapiens
27 RHBDD2  
Two-hybrid Homo sapiens
28 PPP1R18 170954
Affinity Capture-MS Homo sapiens
29 VKORC1 79001
Two-hybrid Homo sapiens
30 CPNE1 8904
Two-hybrid Homo sapiens
31 NEU1 4758
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
32 SOWAHC  
Two-hybrid Homo sapiens
33 UFSP2 55325
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
34 ATP6V0D1 9114
Two-hybrid Homo sapiens
35 ZWINT  
Two-hybrid Homo sapiens
36 PALLD 23022
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
37 PMS2P1  
Two-hybrid Homo sapiens
38 COX1 4512
Two-hybrid Homo sapiens
39 HK1 3098
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
40 KIF3A 11127
Two-hybrid Homo sapiens
41 EEF1A1 1915
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
42 NDUFB10 4716
Two-hybrid Homo sapiens
43 SMC2 10592
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Co-fractionation Homo sapiens
Two-hybrid Homo sapiens
44 TPT1 7178
Two-hybrid Homo sapiens
45 AGO2 27161
Affinity Capture-MS Homo sapiens
46 XRCC4  
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Co-purification Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Co-crystal Structure Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
47 LDHB 3945
Affinity Capture-MS Homo sapiens
48 PHF10  
Two-hybrid Homo sapiens
49 NHEJ1  
Affinity Capture-Western Homo sapiens
50 CCDC176  
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
51 CLU 1191
Two-hybrid Homo sapiens
52 PNKP 11284
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
53 NBN 4683
Co-fractionation Homo sapiens
54 LDHC 3948
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
55 ND1  
Two-hybrid Homo sapiens
56 GGH 8836
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
57 ANAPC10  
Two-hybrid Homo sapiens
58 NOMO3 408050
Two-hybrid Homo sapiens
59 UNC119 9094
Two-hybrid Homo sapiens
60 ENO1 2023
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
61 COA7  
Affinity Capture-MS Homo sapiens
62 GZMK  
Two-hybrid Homo sapiens
63 APTX  
Affinity Capture-MS Homo sapiens
64 HIC2 23119
Affinity Capture-MS Homo sapiens
65 OXR1  
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
66 ACTG1 71
Two-hybrid Homo sapiens
67 RPL11 6135
Two-hybrid Homo sapiens
68 HMGN1  
Two-hybrid Homo sapiens
69 AMZ2P1  
Two-hybrid Homo sapiens
70 RBM5  
Two-hybrid Homo sapiens
71 WBP1L  
Two-hybrid Homo sapiens
72 AGAP4  
Two-hybrid Homo sapiens
73 CTSK 1513
Two-hybrid Homo sapiens
74 B9D1 27077
Two-hybrid Homo sapiens
75 TP53BP1 7158
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
76 NDUFA13 51079
Two-hybrid Homo sapiens
77 ND5 4540
Two-hybrid Homo sapiens
78 TPI1 7167
Affinity Capture-MS Homo sapiens
79 UBE2L3 7332
Two-hybrid Homo sapiens
80 ASPM 259266
Two-hybrid Homo sapiens
81 ZSCAN18  
Two-hybrid Homo sapiens
82 FAM214A  
Two-hybrid Homo sapiens
83 PEX10  
Two-hybrid Homo sapiens
84 ETF1 2107
Two-hybrid Homo sapiens
85 THOC5 8563
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
86 HNRNPA1 3178
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
87 PPIA 5478
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
88 GPANK1  
Two-hybrid Homo sapiens
89 MCM4 4173
Two-hybrid Homo sapiens
90 FBLL1 345630
Two-hybrid Homo sapiens
91 TOP1 7150
Protein-peptide Homo sapiens
92 FIP1L1 81608
Two-hybrid Homo sapiens
93 SEMA4G  
Two-hybrid Homo sapiens
94 BTG1 694
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
95 COX2 4513
Two-hybrid Homo sapiens
96 TRNT1 51095
Cross-Linking-MS (XL-MS) Homo sapiens
97 APLF  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
98 XRCC5 7520
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Co-fractionation Homo sapiens
99 COMMD1 150684
Two-hybrid Homo sapiens
100 PA2G4 5036
Two-hybrid Homo sapiens
101 DPP3 10072
Two-hybrid Homo sapiens
102 ZFAND2A  
Two-hybrid Homo sapiens
103 MAP2K2 5605
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
104 PLEKHA4 57664
Affinity Capture-MS Homo sapiens
105 ZNF428  
Two-hybrid Homo sapiens
106 TSFM 10102
Two-hybrid Homo sapiens
107 EIF3I 8668
Two-hybrid Homo sapiens
108 RUVBL2 10856
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
109 PGP 283871
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
110 OSTM1 28962
Two-hybrid Homo sapiens
111 APEX1 328
Affinity Capture-RNA Homo sapiens
112 HNRNPA2B1 3181
Two-hybrid Homo sapiens
113 CTSD 1509
Affinity Capture-MS Homo sapiens
114 CREBBP  
Two-hybrid Homo sapiens
115 MRPS18C  
Two-hybrid Homo sapiens
116 IPP  
Two-hybrid Homo sapiens
117 MICAL3 57553
Affinity Capture-MS Homo sapiens
118 MYL12A 10627
Affinity Capture-MS Homo sapiens
119 TLE4  
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
120 PFN1 5216
Affinity Capture-MS Homo sapiens
121 COL1A2 1278
Two-hybrid Homo sapiens
122 UBB 7314
Two-hybrid Homo sapiens
123 GAPDH 2597
Two-hybrid Homo sapiens
124 TAGLN2 8407
Affinity Capture-MS Homo sapiens
125 TGM3 7053
Affinity Capture-MS Homo sapiens
126 FOXB1  
Affinity Capture-MS Homo sapiens
127 FLNA 2316
Affinity Capture-MS Homo sapiens
128 TRAPPC3 27095
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
129 DGUOK  
Two-hybrid Homo sapiens
130 XRCC6 2547
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-MS Homo sapiens
131 DDX19A 55308
Two-hybrid Homo sapiens
132 WARS 7453
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
133 COX3 4514
Two-hybrid Homo sapiens
134 ND4 4538
Two-hybrid Homo sapiens
135 ALDOA 226
Affinity Capture-MS Homo sapiens
136 GUSBP3  
Two-hybrid Homo sapiens
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