Gene description for MBD3
Gene name methyl-CpG binding domain protein 3
Gene symbol MBD3
Other names/aliases -
Species Homo sapiens
 Database cross references - MBD3
ExoCarta ExoCarta_53615
Vesiclepedia VP_53615
Entrez Gene 53615
HGNC 6918
MIM 603573
UniProt O95983  
 MBD3 identified in exosomes derived from the following tissue/cell type
Bone marrow mesenchymal stem cells 36408942    
Bone marrow mesenchymal stem cells 36408942    
Bone marrow mesenchymal stem cells 36408942    
Bone marrow mesenchymal stem cells 36408942    
Mesenchymal stem cells Unpublished / Not applicable
 Gene ontology annotations for MBD3
Molecular Function
    DNA binding GO:0003677 TAS
    methyl-CpG binding GO:0008327 IDA
    RNA polymerase II core promoter proximal region sequence-specific DNA binding GO:0000978 IDA
    protein binding GO:0005515 IPI
    nucleosomal DNA binding GO:0031492 IDA
    RNA polymerase II distal enhancer sequence-specific DNA binding GO:0000980 IDA
Biological Process
    methylation-dependent chromatin silencing GO:0006346 IEA
    chromatin organization GO:0006325 TAS
    tissue development GO:0009888 IEA
    in utero embryonic development GO:0001701 IEA
    negative regulation of transcription from RNA polymerase II promoter GO:0000122 IEA
    transcription, DNA-templated GO:0006351 IEA
    ATP-dependent chromatin remodeling GO:0043044 IDA
    histone acetylation GO:0016573 IEA
Subcellular Localization
    protein complex GO:0043234 IDA
    nucleoplasm GO:0005654 TAS
    nuclear chromatin GO:0000790 IDA
    heterochromatin GO:0000792 IEA
    NuRD complex GO:0016581 NAS
    cytoplasm GO:0005737 IEA
 Experiment description of studies that identified MBD3 in exosomes
1
Experiment ID 489
MISEV standards
✔
EM
EV Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
EV Enriched markers
✔
Canx
EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
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 Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 6
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
2
Experiment ID 490
MISEV standards
✔
EM
EV Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
EV Enriched markers
✔
Canx
EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
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 Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 7
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
3
Experiment ID 491
MISEV standards
✔
EM
EV Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
EV Enriched markers
✔
Canx
EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
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 Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 8
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
4
Experiment ID 492
MISEV standards
✔
EM
EV Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
EV Enriched markers
✔
Canx
EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
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 Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 9
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
5
Experiment ID 126
MISEV standards
✘ EV Biophysical techniques
✔
GAPDH
EV Enriched markers
✘ EV Negative markers
✘ EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry [LTQ-FT Ultra]
PubMed ID Unpublished / Not applicable
Organism Homo sapiens
Experiment description Mesenchymal Stem Cell Exosomes: The Future MSC-based Therapy?
Authors Ruenn Chai Lai, Ronne Wee Yeh Yeo, Soon Sim Tan, Bin Zhang, Yijun Yin, Newman Siu Kwan Sze, Andre Choo, and Sai Kiang Lim
Journal name Mesenchymal Stem Cell Therapy
Publication year 2011
Sample Mesenchymal stem cells
Sample name huES9.E1
Isolation/purification methods HPLC
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Antobody array
Mass spectrometry
 Protein-protein interactions for MBD3
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 GATAD2A 54815
Reconstituted Complex Homo sapiens
2 AURKA 6790
Affinity Capture-Western Homo sapiens
Biochemical Activity Homo sapiens
3 MBD2 8932
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
4 MBD3L1  
Two-hybrid Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Two-hybrid Homo sapiens
5 GATAD2B 57459
Affinity Capture-Western Homo sapiens
Co-localization Homo sapiens
Reconstituted Complex Homo sapiens
Reconstituted Complex Homo sapiens
6 MBD3 53615
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
7 HDAC2 3066
Affinity Capture-Western Homo sapiens
8 MTA2 9219
Co-purification Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Reconstituted Complex Homo sapiens
9 HDAC1 3065
Co-purification Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Reconstituted Complex Homo sapiens
10 CHD4 1108
Affinity Capture-Western Homo sapiens
11 RBBP7 5931
Reconstituted Complex Homo sapiens
12 RBBP4 5928
Reconstituted Complex Homo sapiens
View the network image/svg+xml
 Pathways in which MBD3 is involved
PathwayEvidenceSource
HDACs deacetylate histones TAS Reactome
RNA Polymerase I Transcription Initiation TAS Reactome





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