Gene description for DNMT3A
Gene name DNA (cytosine-5-)-methyltransferase 3 alpha
Gene symbol DNMT3A
Other names/aliases DNMT3A2
M.HsaIIIA
TBRS
Species Homo sapiens
 Database cross references - DNMT3A
ExoCarta ExoCarta_1788
Vesiclepedia VP_1788
Entrez Gene 1788
HGNC 2978
MIM 602769
UniProt Q9Y6K1  
 DNMT3A identified in sEVs derived from the following tissue/cell type
Neuroblastoma cells 25944692    
 Gene ontology annotations for DNMT3A
Molecular Function
    RNA polymerase II cis-regulatory region sequence-specific DNA binding GO:0000978 IDA
    DNA binding GO:0003677 EXP
    chromatin binding GO:0003682 IEA
    transcription corepressor activity GO:0003714 TAS
    DNA (cytosine-5-)-methyltransferase activity GO:0003886 IBA
    DNA (cytosine-5-)-methyltransferase activity GO:0003886 IDA
    protein binding GO:0005515 IPI
    identical protein binding GO:0042802 IPI
    unmethylated CpG binding GO:0045322 EXP
    metal ion binding GO:0046872 IEA
    DNA (cytosine-5-)-methyltransferase activity, acting on CpN substrates GO:0051719 IEA
    DNA (cytosine-5-)-methyltransferase activity, acting on CpNpG substrates GO:0051720 IEA
    RNA polymerase II-specific DNA-binding transcription factor binding GO:0061629 IPI
    lncRNA binding GO:0106222 IDA
    protein-cysteine methyltransferase activity GO:0106363 ISS
Biological Process
    negative regulation of transcription by RNA polymerase II GO:0000122 IDA
    negative regulation of transcription by RNA polymerase II GO:0000122 IMP
    DNA methylation-dependent constitutive heterochromatin formation GO:0006346 IMP
    spermatogenesis GO:0007283 IEA
    response to xenobiotic stimulus GO:0009410 IEA
    response to toxic substance GO:0009636 IEA
    response to ionizing radiation GO:0010212 IEA
    response to lead ion GO:0010288 IEA
    neuron differentiation GO:0030182 IEA
    regulatory ncRNA-mediated heterochromatin formation GO:0031048 IGI
    methylation GO:0032259 IEA
    response to estradiol GO:0032355 IEA
    response to vitamin A GO:0033189 IEA
    response to cocaine GO:0042220 IEA
    negative regulation of gene expression via chromosomal CpG island methylation GO:0044027 IDA
    negative regulation of DNA-templated transcription GO:0045892 IBA
    cellular response to amino acid stimulus GO:0071230 IEA
    cellular response to ethanol GO:0071361 IEA
    cellular response to hypoxia GO:0071456 IEA
    hepatocyte apoptotic process GO:0097284 IEA
    autosome genomic imprinting GO:0141068 IEA
    transposable element silencing by piRNA-mediated DNA methylation GO:0141196 IEA
    positive regulation of cellular response to hypoxia GO:1900039 IEA
    cellular response to bisphenol A GO:1903926 IEA
Subcellular Localization
    chromosome, centromeric region GO:0000775 IEA
    euchromatin GO:0000791 IDA
    heterochromatin GO:0000792 IEA
    XY body GO:0001741 IEA
    nucleus GO:0005634 IBA
    nucleus GO:0005634 IDA
    nucleus GO:0005634 NAS
    nucleoplasm GO:0005654 IDA
    nucleoplasm GO:0005654 TAS
    cytoplasm GO:0005737 IBA
    cytoplasm GO:0005737 IDA
    nuclear matrix GO:0016363 IDA
    catalytic complex GO:1902494 IPI
 Experiment description of studies that identified DNMT3A in sEVs
1
Experiment ID 224
MISEV standards
✔ Biophysical techniques
✔ Enriched markers
✔ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 25944692    
Organism Homo sapiens
Experiment description Proteogenomic analysis reveals exosomes are more oncogenic than ectosomes
Authors "Keerthikumar S, Gangoda L, Liem M, Fonseka P, Atukorala I, Ozcitti C, Mechler A, Adda CG, Ang CS, Mathivanan S"
Journal name Oncotarget
Publication year 2015
Sample Neuroblastoma cells
Sample name SH-SY5Y
Isolation/purification methods Differential centrifugation
Ultracentrifugation
OptiPrep density gradient
Flotation density 1.10 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
Western blotting
 Protein-protein interactions for DNMT3A
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 CD3EAP  
Proximity Label-MS Homo sapiens
2 CBX4  
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
3 POLR2C 5432
Affinity Capture-MS Homo sapiens
4 SLFN11 91607
Affinity Capture-MS Homo sapiens
5 DNMT3L  
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Co-localization Homo sapiens
Affinity Capture-Western Homo sapiens
Co-crystal Structure Homo sapiens
Reconstituted Complex Homo sapiens
6 PCDHGA2  
Co-localization Homo sapiens
7 HNRNPH1 3187
Affinity Capture-RNA Homo sapiens
8 MECP2 4204
Affinity Capture-MS Homo sapiens
9 ZBTB17  
Affinity Capture-Western Homo sapiens
10 CBX1 10951
Reconstituted Complex Homo sapiens
11 Tdg 21665
Reconstituted Complex Mus musculus
Affinity Capture-Western Mus musculus
Two-hybrid Mus musculus
12 PARP1 142
Proximity Label-MS Homo sapiens
13 HIST1H3A 8350
Proximity Label-MS Homo sapiens
Reconstituted Complex Homo sapiens
14 ZNF513  
Two-hybrid Homo sapiens
15 MDFI  
Two-hybrid Homo sapiens
16 CDC73  
Affinity Capture-MS Homo sapiens
17 H3F3A 3020
Co-crystal Structure Homo sapiens
18 POLR2H 5437
Affinity Capture-MS Homo sapiens
19 SIM1  
Co-localization Homo sapiens
20 USP7 7874
Reconstituted Complex Homo sapiens
21 SALL3  
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
22 TFAP2A  
Affinity Capture-Western Homo sapiens
23 RB1 5925
Reconstituted Complex Homo sapiens
24 PRRX1 5396
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
25 WBSCR22  
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Co-localization Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
26 DCAF8 50717
Affinity Capture-Western Homo sapiens
27 HIST1H2BG 8339
Proximity Label-MS Homo sapiens
28 PAF1 54623
Affinity Capture-MS Homo sapiens
29 Zbtb18  
Two-hybrid Mus musculus
30 TCL1A  
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
31 RAD18  
Affinity Capture-MS Homo sapiens
32 RTF1 23168
Affinity Capture-MS Homo sapiens
33 UHRF2  
Affinity Capture-Western Homo sapiens
34 EHMT2 10919
Protein-peptide Homo sapiens
Biochemical Activity Homo sapiens
35 HDAC1 3065
Reconstituted Complex Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
36 F8A1 8263
Biochemical Activity Homo sapiens
37 MIR9-3  
Co-localization Homo sapiens
38 SETDB1  
Affinity Capture-Western Homo sapiens
39 CREM  
Affinity Capture-Western Homo sapiens
40 EEF1A1 1915
Protein-RNA Homo sapiens
41 CENPA  
Proximity Label-MS Homo sapiens
42 IRF9 10379
Affinity Capture-Western Homo sapiens
43 TERF2IP 54386
Two-hybrid Homo sapiens
44 Mbd3  
Reconstituted Complex Mus musculus
45 HIST1H3E 8353
Reconstituted Complex Homo sapiens
Far Western Homo sapiens
46 PRMT5 10419
Reconstituted Complex Homo sapiens
47 UBE2I 7329
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
48 PCDHA13  
Co-localization Homo sapiens
49 DNMT3B  
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
50 TRIM28 10155
Affinity Capture-Western Homo sapiens
51 CDH1 999
Protein-RNA Homo sapiens
52 EZH2  
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
53 MYC  
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
54 WT1  
Co-localization Homo sapiens
55 ZBTB33  
Affinity Capture-Western Homo sapiens
56 COMMD6 170622
Affinity Capture-MS Homo sapiens
57 CBX5 23468
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
58 PIAS2  
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
59 MPHOSPH8 54737
Protein-peptide Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Co-crystal Structure Homo sapiens
60 Zbtb48  
Affinity Capture-MS Mus musculus
61 PIAS1 8554
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Co-localization Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
62 PCDHA4 56144
Affinity Capture-MS Homo sapiens
63 MEOX2  
Two-hybrid Homo sapiens
64 EHMT1  
Protein-peptide Homo sapiens
Biochemical Activity Homo sapiens
65 PTGES3 10728
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
66 SUV39H1  
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
67 UHRF1 29128
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
68 DNMT3A 1788
Reconstituted Complex Homo sapiens
Reconstituted Complex Homo sapiens
69 CTR9 9646
Affinity Capture-MS Homo sapiens
70 TDG 6996
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
71 SPI1  
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
72 DNMT1 1786
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
73 POLR2A 5430
Affinity Capture-MS Homo sapiens
74 ZFP57  
Affinity Capture-Western Homo sapiens
75 ZBTB18  
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
76 RASSF1  
Co-localization Homo sapiens
77 NUP153 9972
Protein-RNA Homo sapiens
78 EED  
Affinity Capture-Western Homo sapiens
Co-localization Homo sapiens
79 SP100 6672
Two-hybrid Homo sapiens
80 LEO1 123169
Affinity Capture-MS Homo sapiens
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