Gene description for YBX3
Gene name Y box binding protein 3
Gene symbol YBX3
Other names/aliases CSDA
CSDA1
DBPA
ZONAB
Species Homo sapiens
 Database cross references - YBX3
ExoCarta ExoCarta_8531
Entrez Gene 8531
HGNC 2428
MIM 603437
UniProt P16989  
 YBX3 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    
 Gene ontology annotations for YBX3
Molecular Function
    transcription corepressor activity GO:0003714 TAS
    poly(A) RNA binding GO:0044822 IDA
    mRNA 3'-UTR binding GO:0003730 ISS
    RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription GO:0001227 IEA
    RNA polymerase II regulatory region sequence-specific DNA binding GO:0000977 IEA
    double-stranded DNA binding GO:0003690 TAS
    sequence-specific DNA binding transcription factor activity GO:0003700 NAS
    Rho GTPase binding GO:0017048 ISS
    single-stranded DNA binding GO:0003697 IEA
Biological Process
    cellular response to tumor necrosis factor GO:0071356 IMP
    in utero embryonic development GO:0001701 IEA
    negative regulation of intrinsic apoptotic signaling pathway in response to osmotic stress GO:1902219 IMP
    spermatogenesis GO:0007283 IEA
    fertilization GO:0009566 IEA
    negative regulation of necroptotic process GO:0060546 IMP
    response to cold GO:0009409 TAS
    transcription, DNA-templated GO:0006351 IEA
    positive regulation of organ growth GO:0046622 IEA
    cellular hyperosmotic response GO:0071474 IMP
    negative regulation of skeletal muscle tissue development GO:0048642 IEA
    male gonad development GO:0008584 IEA
    negative regulation of transcription from RNA polymerase II promoter GO:0000122 IEA
    3'-UTR-mediated mRNA stabilization GO:0070935 IC
    positive regulation of cytoplasmic translation GO:2000767 ISS
Subcellular Localization
    nucleus GO:0005634 ISS
    polysome GO:0005844 IEA
    perinuclear region of cytoplasm GO:0048471 ISS
    cytoplasm GO:0005737 IDA
    bicellular tight junction GO:0005923 ISS
 Experiment description of studies that identified YBX3 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
 Protein-protein interactions for YBX3
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 NFYB  
Invitro Homo sapiens
Affinity Capture-MS Homo sapiens
View the network image/svg+xml
 Pathways in which YBX3 is involved
No pathways found





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