Gene description for Sdcbp
Gene name syndecan binding protein
Gene symbol Sdcbp
Other names/aliases MDA-9
Sycl
syntenin-1
Species Mus musculus
 Database cross references - Sdcbp
ExoCarta ExoCarta_53378
Vesiclepedia VP_53378
Entrez Gene 53378
UniProt O08992  
 Sdcbp identified in sEVs derived from the following tissue/cell type
Brain cancer cells 19109410    
Breast cancer cells 34108659    
Colon cancer cells 37309723    
Colorectal cancer cells 34108659    
Dendritic cells 11390481    
Embryonic fibroblasts 18494037    
Embryonic fibroblasts 34108659    
Fibroblasts 23260141    
Hepatocytes 34489604    
Hepatocytes 34489604    
Hepatocytes 34489604    
Macrophages 23658846    
Macrophages 23658846    
Macrophages 23658846    
Mast cells 17486113    
Melanoma cells 34108659    
Microglia 16081791    
Monocyte/macrophage-like cells 34108659    
Serum 34108659    
T-cell lymphoma cells 37309723    
 Gene ontology annotations for Sdcbp
Molecular Function
    frizzled binding GO:0005109 IEA
    frizzled binding GO:0005109 ISO
    interleukin-5 receptor binding GO:0005137 IMP
    protein binding GO:0005515 IPI
    phosphatidylinositol-4,5-bisphosphate binding GO:0005546 IEA
    phosphatidylinositol-4,5-bisphosphate binding GO:0005546 ISO
    growth factor binding GO:0019838 IEA
    growth factor binding GO:0019838 ISO
    ionotropic glutamate receptor binding GO:0035255 IEA
    ionotropic glutamate receptor binding GO:0035255 ISO
    neurexin family protein binding GO:0042043 IEA
    neurexin family protein binding GO:0042043 ISO
    identical protein binding GO:0042802 IEA
    identical protein binding GO:0042802 ISO
    protein-containing complex binding GO:0044877 IEA
    protein-containing complex binding GO:0044877 ISO
    syndecan binding GO:0045545 IBA
    syndecan binding GO:0045545 IEA
    syndecan binding GO:0045545 ISO
    ephrin receptor binding GO:0046875 IEA
    ephrin receptor binding GO:0046875 ISO
    protein heterodimerization activity GO:0046982 IEA
    protein heterodimerization activity GO:0046982 ISO
    cell adhesion molecule binding GO:0050839 IEA
    cell adhesion molecule binding GO:0050839 ISO
    protein sequestering activity GO:0140311 IEA
    protein sequestering activity GO:0140311 ISO
Biological Process
    negative regulation of transcription by RNA polymerase II GO:0000122 IEA
    negative regulation of transcription by RNA polymerase II GO:0000122 ISO
    negative regulation of receptor internalization GO:0002091 ISO
    negative regulation of receptor internalization GO:0002091 ISS
    Ras protein signal transduction GO:0007265 IPI
    regulation of mitotic cell cycle GO:0007346 ISO
    regulation of mitotic cell cycle GO:0007346 ISS
    positive regulation of cell population proliferation GO:0008284 IMP
    positive regulation of cell population proliferation GO:0008284 ISO
    positive regulation of epithelial to mesenchymal transition GO:0010718 ISO
    positive regulation of epithelial to mesenchymal transition GO:0010718 ISS
    positive regulation of cell growth GO:0030307 IMP
    positive regulation of cell growth GO:0030307 ISO
    positive regulation of cell migration GO:0030335 IMP
    positive regulation of cell migration GO:0030335 ISO
    positive regulation of transforming growth factor beta receptor signaling pathway GO:0030511 IBA
    positive regulation of transforming growth factor beta receptor signaling pathway GO:0030511 ISO
    positive regulation of transforming growth factor beta receptor signaling pathway GO:0030511 ISS
    positive regulation of phosphorylation GO:0042327 IEA
    positive regulation of phosphorylation GO:0042327 ISO
    presynapse assembly GO:0099054 IEA
    presynapse assembly GO:0099054 ISO
    positive regulation of exosomal secretion GO:1903543 IEA
    positive regulation of exosomal secretion GO:1903543 ISO
    positive regulation of extracellular exosome assembly GO:1903553 IEA
    positive regulation of extracellular exosome assembly GO:1903553 ISO
Subcellular Localization
    nucleoplasm GO:0005654 IEA
    nucleoplasm GO:0005654 ISO
    cytoplasm GO:0005737 IBA
    cytoplasm GO:0005737 ISO
    endoplasmic reticulum membrane GO:0005789 IEA
    cytosol GO:0005829 IEA
    cytosol GO:0005829 ISO
    cytoskeleton GO:0005856 IEA
    plasma membrane GO:0005886 IBA
    plasma membrane GO:0005886 ISO
    plasma membrane GO:0005886 ISS
    interleukin-5 receptor complex GO:0005895 IMP
    adherens junction GO:0005912 IEA
    focal adhesion GO:0005925 IEA
    nuclear membrane GO:0031965 IEA
    nuclear membrane GO:0031965 ISO
    melanosome GO:0042470 IEA
    membrane raft GO:0045121 ISO
    membrane raft GO:0045121 ISS
    extracellular exosome GO:0070062 IEA
    extracellular exosome GO:0070062 ISO
    presynapse GO:0098793 IEA
    presynapse GO:0098793 ISO
 Experiment description of studies that identified Sdcbp in sEVs
1
Experiment ID 26
MISEV standards
✔
EM
Biophysical techniques
✔
Alix|GAPDH|HSP70|CD9
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 19109410    
Organism Mus musculus
Experiment description Proteomic and immunologic analyses of brain tumor exosomes.
Authors "Graner MW, Alzate O, Dechkovskaia AM, Keene JD, Sampson JH, Mitchell DA, Bigner DD"
Journal name FASEB
Publication year 2008
Sample Brain cancer cells
Sample name SMA560vIII
Isolation/purification methods Differential centrifugation
Sucrose density gradient
Flotation density 1.13-1.15 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry [MALDI TOF/TOF]
Western blotting
2
Experiment ID 441
MISEV standards
✘ Biophysical techniques
✔
Sdcbp
Enriched markers
✘ Negative markers
✔
NTA
Particle analysis
Identified molecule protein
Identification method Western blotting
PubMed ID 34108659    
Organism Mus musculus
Experiment description Quantitative Proteomics Identifies the Core Proteome of Exosomes with Syntenin-1 as the highest abundant protein and a Putative Universal Biomarker
Authors "Kugeratski FG, Hodge K, Lilla S, McAndrews KM, Zhou X, Hwang RF, Zanivan S, Kalluri R."
Journal name Nat Cell Biol
Publication year 2021
Sample Breast cancer cells
Sample name 4T1
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
3
Experiment ID 907
MISEV standards
✔
EM
Biophysical techniques
✔
Tsg101|Sdcbp|Cd151|Gapdh|Lamp2|Cd81|Cd82|Cd9|Cd63|Cd80|Flot2|Tfrc|Rab35|Rab5a
Enriched markers
✔
HSPA5
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 37309723    
Organism Mus musculus
Experiment description Proteomic analysis of the small extracellular vesicles and soluble secretory proteins from cachexia inducing and non-inducing cancer cells
Authors "Chitti SV, Kang T, Fonseka P, Marzan AL, Stewart S, Shahi S, Bramich K, Ang CS, Pathan M, Gummadi S, Mathivanan S."
Journal name Proteomics
Publication year 2023
Sample Colon cancer cells
Sample name C26
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
4
Experiment ID 443
MISEV standards
✘ Biophysical techniques
✔
Sdcbp
Enriched markers
✘ Negative markers
✔
NTA
Particle analysis
Identified molecule protein
Identification method Western blotting
PubMed ID 34108659    
Organism Mus musculus
Experiment description Quantitative Proteomics Identifies the Core Proteome of Exosomes with Syntenin-1 as the highest abundant protein and a Putative Universal Biomarker
Authors "Kugeratski FG, Hodge K, Lilla S, McAndrews KM, Zhou X, Hwang RF, Zanivan S, Kalluri R."
Journal name Nat Cell Biol
Publication year 2021
Sample Colorectal cancer cells
Sample name MC-38
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
5
Experiment ID 10
MISEV standards
✔
EM
Biophysical techniques
✔
Alix|CD9|MHCII|MHCI|CD86|LAMP2
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry [MALDI TOF]
Mass spectrometry [QTOF]
PubMed ID 11390481    
Organism Mus musculus
Experiment description Proteomic analysis of dendritic cell-derived exosomes: a secreted subcellular compartment distinct from apoptotic vesicles.
Authors "Thery C, Boussac M, Veron P, Ricciardi-Castagnoli P, Raposo G, Garin J, Amigorena S."
Journal name JIMMU
Publication year 2001
Sample Dendritic cells
Sample name D1
Isolation/purification methods Differential centrifugation
Sucrose density gradient
Flotation density 1.15-1.18 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry [MALDI TOF]
Mass spectrometry [QTOF]
Western blotting
6
Experiment ID 73
MISEV standards
✔
EM
Biophysical techniques
✔
HSP70|HSP90
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 18494037    
Organism Mus musculus
Experiment description Difference gel electrophoresis analysis of Ras-transformed fibroblast cell-derived exosomes.
Authors "Ji H, Erfani N, Tauro BJ, Kapp EA, Zhu HJ, Moritz RL, Lim JW, Simpson RJ"
Journal name ELEC
Publication year 2008
Sample Embryonic fibroblasts
Sample name NIH3T3
Isolation/purification methods Differential centrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry [LCQ DECA]
Western blotting
7
Experiment ID 444
MISEV standards
✘ Biophysical techniques
✔
Sdcbp
Enriched markers
✘ Negative markers
✔
NTA
Particle analysis
Identified molecule protein
Identification method Western blotting
PubMed ID 34108659    
Organism Mus musculus
Experiment description Quantitative Proteomics Identifies the Core Proteome of Exosomes with Syntenin-1 as the highest abundant protein and a Putative Universal Biomarker
Authors "Kugeratski FG, Hodge K, Lilla S, McAndrews KM, Zhou X, Hwang RF, Zanivan S, Kalluri R."
Journal name Nat Cell Biol
Publication year 2021
Sample Embryonic fibroblasts
Sample name NIH-3T3
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
8
Experiment ID 210
MISEV standards
✔
EM
Biophysical techniques
✔
CD81|FLOT1
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23260141    
Organism Mus musculus
Experiment description Exosomes Mediate Stromal Mobilization of Autocrine Wnt-PCP Signaling in Breast Cancer Cell Migration.
Authors "Luga V, Zhang L, Viloria-Petit AM, Ogunjimi AA, Inanlou MR, Chiu E, Buchanan M, Hosein AN, Basik M, Wrana JL."
Journal name Cell
Publication year 2012
Sample Fibroblasts
Sample name Normal-Fibroblasts (L cells)
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
9
Experiment ID 695
MISEV standards
✘ Biophysical techniques
✔
Cd63|Tsg101|Sdcbp
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Western blotting
PubMed ID 34489604    
Organism Mus musculus
Experiment description Hepatocyte-derived exosomes from early onset obese mice promote insulin sensitivity through miR-3075
Authors "Ji Y, Luo Z, Gao H, Dos Reis FCG, Bandyopadhyay G, Jin Z, Manda KA, Isaac R, Yang M, Fu W, Ying W, Olefsky JM. "
Journal name Nat Metab
Publication year 2021
Sample Hepatocytes
Sample name Primary hepatocytes - C57BL/6
Isolation/purification methods Centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
miRNA
Methods used in the study Western blotting
Small RNA sequencing
10
Experiment ID 696
MISEV standards
✘ Biophysical techniques
✔
Cd63|Tsg101|Sdcbp
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Western blotting
PubMed ID 34489604    
Organism Mus musculus
Experiment description Hepatocyte-derived exosomes from early onset obese mice promote insulin sensitivity through miR-3075
Authors "Ji Y, Luo Z, Gao H, Dos Reis FCG, Bandyopadhyay G, Jin Z, Manda KA, Isaac R, Yang M, Fu W, Ying W, Olefsky JM. "
Journal name Nat Metab
Publication year 2021
Sample Hepatocytes
Sample name Primary hepatocytes - C57BL/6
Isolation/purification methods Centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
miRNA
Methods used in the study Western blotting
Small RNA sequencing
11
Experiment ID 697
MISEV standards
✘ Biophysical techniques
✔
Cd63|Tsg101|Sdcbp
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Western blotting
PubMed ID 34489604    
Organism Mus musculus
Experiment description Hepatocyte-derived exosomes from early onset obese mice promote insulin sensitivity through miR-3075
Authors "Ji Y, Luo Z, Gao H, Dos Reis FCG, Bandyopadhyay G, Jin Z, Manda KA, Isaac R, Yang M, Fu W, Ying W, Olefsky JM. "
Journal name Nat Metab
Publication year 2021
Sample Hepatocytes
Sample name Primary hepatocytes - C57BL/6
Isolation/purification methods Centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
miRNA
Methods used in the study Western blotting
Small RNA sequencing
12
Experiment ID 214
MISEV standards
✔
EM
Biophysical techniques
✘ Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23658846    
Organism Mus musculus
Experiment description Immunomodulatory impact of leishmania-induced macrophage exosomes: a comparative proteomic and functional analysis.
Authors "Hassani K, Olivier M."
Journal name PLoS Negl Trop Dis
Publication year 2013
Sample Macrophages
Sample name Leishmania-infected-Macrophage (J774A.1)
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Filtration
Protease inhibitors
Sucrose density gradient
Filtration
Ultracentrifugation
Flotation density 1.13-1.19 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
13
Experiment ID 215
MISEV standards
✔
EM
Biophysical techniques
✘ Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23658846    
Organism Mus musculus
Experiment description Immunomodulatory impact of leishmania-induced macrophage exosomes: a comparative proteomic and functional analysis.
Authors "Hassani K, Olivier M."
Journal name PLoS Negl Trop Dis
Publication year 2013
Sample Macrophages
Sample name LPS-treated-Macrophage (J774A.1)
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Filtration
Protease inhibitors
Sucrose density gradient
Filtration
Ultracentrifugation
Flotation density 1.13-1.19 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
14
Experiment ID 216
MISEV standards
✔
EM
Biophysical techniques
✘ Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23658846    
Organism Mus musculus
Experiment description Immunomodulatory impact of leishmania-induced macrophage exosomes: a comparative proteomic and functional analysis.
Authors "Hassani K, Olivier M."
Journal name PLoS Negl Trop Dis
Publication year 2013
Sample Macrophages
Sample name Normal-Macrophage (J774A.1)
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Filtration
Protease inhibitors
Sucrose density gradient
Filtration
Ultracentrifugation
Flotation density 1.13-1.19 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
15
Experiment ID 15
MISEV standards
✔
EM
Biophysical techniques
✔
CD63
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 17486113    
Organism Mus musculus
Homo sapiens
Experiment description Exosome-mediated transfer of mRNAs and microRNAs is a novel mechanism of genetic exchange between cells.
Authors "Valadi H, Ekstrom K, Bossios A, Sjostrand M, Lee JJ, Lotvall JO"
Journal name NCB
Publication year 2007
Sample Mast cells
Sample name MC9
Bone marrow-derived mast cells
HMC-1
Isolation/purification methods Filtration
Ultracentrifugation
Sucrose density gradient
Flotation density 1.11-1.21 g/mL
Molecules identified in the study Protein
mRNA
miRNA
Methods used in the study Mass spectrometry [MALDI TOF]
Western blotting
Microarray
miRCURY LNA Array
16
Experiment ID 442
MISEV standards
✘ Biophysical techniques
✔
Sdcbp
Enriched markers
✘ Negative markers
✔
NTA
Particle analysis
Identified molecule protein
Identification method Western blotting
PubMed ID 34108659    
Organism Mus musculus
Experiment description Quantitative Proteomics Identifies the Core Proteome of Exosomes with Syntenin-1 as the highest abundant protein and a Putative Universal Biomarker
Authors "Kugeratski FG, Hodge K, Lilla S, McAndrews KM, Zhou X, Hwang RF, Zanivan S, Kalluri R."
Journal name Nat Cell Biol
Publication year 2021
Sample Melanoma cells
Sample name B16-F10
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
17
Experiment ID 14
MISEV standards
✔
EM
Biophysical techniques
✔
RAB7|RAB11|CD9|CD63|LAMP1|LAMP2
Enriched markers
✔
DNM
Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 16081791    
Organism Mus musculus
Experiment description Proteomic analysis of microglia-derived exosomes: metabolic role of the aminopeptidase CD13 in neuropeptide catabolism.
Authors "Potolicchio I, Carven GJ, Xu X, Stipp C, Riese RJ, Stern LJ, Santambrogio L"
Journal name JIMMU
Publication year 2005
Sample Microglia
Sample name N9
Isolation/purification methods Differential centrifugation
Sucrose density gradient
Flotation density 1.15 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry [LCQ DECA XP]
Western blotting
18
Experiment ID 445
MISEV standards
✘ Biophysical techniques
✔
Sdcbp
Enriched markers
✘ Negative markers
✔
NTA
Particle analysis
Identified molecule protein
Identification method Western blotting
PubMed ID 34108659    
Organism Mus musculus
Experiment description Quantitative Proteomics Identifies the Core Proteome of Exosomes with Syntenin-1 as the highest abundant protein and a Putative Universal Biomarker
Authors "Kugeratski FG, Hodge K, Lilla S, McAndrews KM, Zhou X, Hwang RF, Zanivan S, Kalluri R."
Journal name Nat Cell Biol
Publication year 2021
Sample Monocyte/macrophage-like cells
Sample name RAW 264.7
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
19
Experiment ID 446
MISEV standards
✘ Biophysical techniques
✔
Sdcbp
Enriched markers
✘ Negative markers
✔
NTA
Particle analysis
Identified molecule protein
Identification method Western blotting
PubMed ID 34108659    
Organism Mus musculus
Experiment description Quantitative Proteomics Identifies the Core Proteome of Exosomes with Syntenin-1 as the highest abundant protein and a Putative Universal Biomarker
Authors "Kugeratski FG, Hodge K, Lilla S, McAndrews KM, Zhou X, Hwang RF, Zanivan S, Kalluri R."
Journal name Nat Cell Biol
Publication year 2021
Sample Serum
Sample name C57BL/6J
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
20
Experiment ID 908
MISEV standards
✔
EM
Biophysical techniques
✔
Tsg101|Sdcbp|Cd151|Gapdh|Lamp2|Cd81|Cd82|Cd9|Cd63|Cd80|Flot2|Tfrc|Rab35|Rab5a
Enriched markers
✔
HSPA5
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 37309723    
Organism Mus musculus
Experiment description Proteomic analysis of the small extracellular vesicles and soluble secretory proteins from cachexia inducing and non-inducing cancer cells
Authors "Chitti SV, Kang T, Fonseka P, Marzan AL, Stewart S, Shahi S, Bramich K, Ang CS, Pathan M, Gummadi S, Mathivanan S."
Journal name Proteomics
Publication year 2023
Sample T-cell lymphoma cells
Sample name EL4
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
 Protein-protein interactions for Sdcbp
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 Rnh1 107702
Co-fractionation Mus musculus
2 Zbtb7b  
Affinity Capture-MS Mus musculus
3 Vamp2  
Co-fractionation Mus musculus
4 Ubc  
Two-hybrid Mus musculus
5 Tmem173  
Proximity Label-MS Mus musculus
6 Kctd13  
Affinity Capture-MS Mus musculus
7 Pycrl 66194
Co-fractionation Mus musculus
8 Unk  
Affinity Capture-RNA Mus musculus
9 Tnfaip8  
Co-fractionation Mus musculus
10 Nars2 244141
Co-fractionation Mus musculus
11 Rars 104458
Co-fractionation Mus musculus
12 Pts  
Co-fractionation Mus musculus
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