Gene description for RBBP4
Gene name retinoblastoma binding protein 4
Gene symbol RBBP4
Other names/aliases NURF55
RBAP48
lin-53
Species Homo sapiens
 Database cross references - RBBP4
ExoCarta ExoCarta_5928
Entrez Gene 5928
HGNC 9887
MIM 602923
UniProt Q09028  
 RBBP4 identified in exosomes derived from the following tissue/cell type
Colorectal cancer cells 23161513    
Colorectal cancer cells 23161513    
Colorectal cancer cells 23161513    
Ovarian cancer cells 23333927    
Ovarian cancer cells 23333927    
Thymus 23844026    
 Gene ontology annotations for RBBP4
Molecular Function
    histone binding GO:0042393 NAS
    RNA polymerase II distal enhancer sequence-specific DNA binding GO:0000980 IDA
    protein binding GO:0005515 IPI
    histone deacetylase binding GO:0042826 IPI
    nucleosomal DNA binding GO:0031492 IDA
    RNA polymerase II core promoter proximal region sequence-specific DNA binding GO:0000978 IDA
    DNA-dependent ATPase activity GO:0008094 IDA
Biological Process
    CENP-A containing nucleosome assembly GO:0034080 TAS
    chromatin organization GO:0006325 TAS
    negative regulation of gene expression, epigenetic GO:0045814 TAS
    DNA replication GO:0006260 IEA
    gene expression GO:0010467 TAS
    chromatin assembly GO:0031497 IDA
    mitotic cell cycle GO:0000278 TAS
    nucleosome assembly GO:0006334 TAS
    negative regulation of cell proliferation GO:0008285 TAS
    chromatin remodeling GO:0006338 IDA
    regulation of gene expression, epigenetic GO:0040029 TAS
    G2/M transition of mitotic cell cycle GO:0000086 TAS
    DNA replication-independent nucleosome assembly GO:0006336 IDA
    DNA replication-dependent nucleosome assembly GO:0006335 IDA
    transcription, DNA-templated GO:0006351 IEA
    regulation of cell cycle GO:0051726 TAS
    regulation of transcription, DNA-templated GO:0006355 IEA
    ATP-dependent chromatin remodeling GO:0043044 IDA
Subcellular Localization
    CAF-1 complex GO:0033186 IDA
    ESC/E(Z) complex GO:0035098 IDA
    NuRD complex GO:0016581 NAS
    nucleoplasm GO:0005654 TAS
    Sin3 complex GO:0016580 NAS
    nucleus GO:0005634 IDA
    NURF complex GO:0016589 IDA
    nuclear chromatin GO:0000790 IDA
    protein complex GO:0043234 IDA
 Experiment description of studies that identified RBBP4 in exosomes
1
Experiment ID 207
ISEV standards
✔
EM
EV Biophysical techniques
✔
TSG101|HSP70
EV Cytosolic markers
✔
FLOT1
EV Membrane markers
✔
VDAC
EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23161513    
Organism Homo sapiens
Experiment description Proteomic analysis of exosomes from mutant KRAS colon cancer cells identifies intercellular transfer of mutant KRAS.
Authors Demory Beckler M, Higginbotham JN, Franklin JL, Ham AJ, Halvey PJ, Imasuen IE, Whitwell C, Li M, Liebler DC, Coffey RJ.
Journal name Mol Cell Proteomics
Publication year 2012
Sample Colorectal cancer cells
Sample name DKO-1
Isolation/purification methods Differential centrifugation
Filtration
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
2
Experiment ID 208
ISEV standards
✔
EM
EV Biophysical techniques
✔
TSG101|HSP70
EV Cytosolic markers
✔
FLOT1
EV Membrane markers
✔
VDAC
EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23161513    
Organism Homo sapiens
Experiment description Proteomic analysis of exosomes from mutant KRAS colon cancer cells identifies intercellular transfer of mutant KRAS.
Authors Demory Beckler M, Higginbotham JN, Franklin JL, Ham AJ, Halvey PJ, Imasuen IE, Whitwell C, Li M, Liebler DC, Coffey RJ.
Journal name Mol Cell Proteomics
Publication year 2012
Sample Colorectal cancer cells
Sample name Dks-8
Isolation/purification methods Differential centrifugation
Filtration
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
3
Experiment ID 209
ISEV standards
✘ EV Biophysical techniques
✔
TSG101|HSP70
EV Cytosolic markers
✔
FLOT1
EV Membrane markers
✔
VDAC
EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23161513    
Organism Homo sapiens
Experiment description Proteomic analysis of exosomes from mutant KRAS colon cancer cells identifies intercellular transfer of mutant KRAS.
Authors Demory Beckler M, Higginbotham JN, Franklin JL, Ham AJ, Halvey PJ, Imasuen IE, Whitwell C, Li M, Liebler DC, Coffey RJ.
Journal name Mol Cell Proteomics
Publication year 2012
Sample Colorectal cancer cells
Sample name DLD-1
Isolation/purification methods Differential centrifugation
Filtration
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
4
Experiment ID 211
ISEV standards
✔
EM
EV Biophysical techniques
✔
TSG101|Alix
EV Cytosolic markers
✔
EpCAM|TFRC
EV Membrane markers
✔
cytochrome c|GOLGA2
EV Negative markers
✘ EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23333927    
Organism Homo sapiens
Experiment description Characterization and proteomic analysis of ovarian cancer-derived exosomes.
Authors Liang B, Peng P, Chen S, Li L, Zhang M, Cao D, Yang J, Li H, Gui T, Li X, Shen K.
Journal name J Proteomics
Publication year 2013
Sample Ovarian cancer cells
Sample name IGROV1
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Sucrose density gradient
Flotation density 1.09-1.15 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
5
Experiment ID 212
ISEV standards
✔
CEM
EV Biophysical techniques
✔
TSG101|Alix
EV Cytosolic markers
✔
EpCAM|TFRC
EV Membrane markers
✔
Cytochrome C|GOLGA2
EV Negative markers
✘ EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23333927    
Organism Homo sapiens
Experiment description Characterization and proteomic analysis of ovarian cancer-derived exosomes.
Authors Liang B, Peng P, Chen S, Li L, Zhang M, Cao D, Yang J, Li H, Gui T, Li X, Shen K.
Journal name J Proteomics
Publication year 2013
Sample Ovarian cancer cells
Sample name OVCAR-3
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Sucrose density gradient
Flotation density 1.09-1.15 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
6
Experiment ID 217
ISEV standards
✔
EM
EV Biophysical techniques
✔
TSG101
EV Cytosolic markers
✔
CD81|CD9|CD63
EV Membrane markers
✘ EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23844026    
Organism Homo sapiens
Experiment description Characterization of human thymic exosomes.
Authors Skogberg G, Gudmundsdottir J, van der Post S, Sandstrom K, Bruhn S, Benson M, Mincheva-Nilsson L, Baranov V, Telemo E, Ekwall O.
Journal name PLoS One
Publication year 2013
Sample Thymus
Sample name Normal-Thymus
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
 Protein-protein interactions for RBBP4
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 MTA1  
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
2 CREBBP  
Two-hybrid Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
3 HDAC4  
Affinity Capture-Western Homo sapiens
4 HDAC2 3066
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
5 MTA2 9219
Affinity Capture-Western Homo sapiens
Co-purification Homo sapiens
6 SIN3A  
Affinity Capture-Western Homo sapiens
Invivo Homo sapiens
Invitro Homo sapiens
Reconstituted Complex Homo sapiens
7 SMARCA5 8467
Co-purification Homo sapiens
8 RB1 5925
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
9 GATAD2B  
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
10 SP1  
Affinity Capture-Western Homo sapiens
11 E2F1 1869
Affinity Capture-Western Homo sapiens
12 HCFC1 3054
Affinity Capture-MS Homo sapiens
13 BRCA1 672
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
14 ASF1B  
Affinity Capture-MS Homo sapiens
15 SAP30 8819
Affinity Capture-Western Homo sapiens
Co-purification Homo sapiens
Affinity Capture-MS Homo sapiens
Invitro Homo sapiens
Invivo Homo sapiens
Reconstituted Complex Homo sapiens
16 CREB1  
Two-hybrid Homo sapiens
17 HDAC1 3065
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Co-purification Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
18 SMARCA2  
Co-purification Homo sapiens
19 HDAC3 8841
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
20 ING1  
Affinity Capture-MS Homo sapiens
21 SMARCA4 6597
Co-purification Homo sapiens
22 SP3  
Affinity Capture-Western Homo sapiens
23 MBD2  
Affinity Capture-Western Homo sapiens
24 SMARCB1 6598
Co-purification Homo sapiens
25 XRCC6 2547
Two-hybrid Homo sapiens
26 SUV39H1  
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
27 MBD3L1  
Affinity Capture-Western Homo sapiens
28 MBD3 53615
Reconstituted Complex Homo sapiens
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