Gene description for PDGFD
Gene name platelet derived growth factor D
Gene symbol PDGFD
Other names/aliases IEGF
MSTP036
SCDGF-B
SCDGFB
Species Homo sapiens
 Database cross references - PDGFD
ExoCarta ExoCarta_80310
Vesiclepedia VP_80310
Entrez Gene 80310
HGNC 30620
MIM 609673
UniProt Q9GZP0  
 PDGFD identified in sEVs 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    
Gastric cancer cells 33991177    
Gastric cancer cells 33991177    
Gastric cancer cells 33991177    
 Gene ontology annotations for PDGFD
Molecular Function
    platelet-derived growth factor receptor binding GO:0005161 IBA
    growth factor activity GO:0008083 IEA
Biological Process
    positive regulation of cell population proliferation GO:0008284 IBA
    positive regulation of cell migration GO:0030335 IBA
    cellular response to platelet-derived growth factor stimulus GO:0036120 IEA
    platelet-derived growth factor receptor signaling pathway GO:0048008 IBA
    positive regulation of fibroblast proliferation GO:0048146 IEA
    positive regulation of smooth muscle cell proliferation GO:0048661 IEA
    positive regulation of cell division GO:0051781 IEA
    positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction GO:0051897 IBA
    cellular response to hydrogen peroxide GO:0070301 IEA
    positive regulation of ERK1 and ERK2 cascade GO:0070374 IBA
    cellular response to amino acid stimulus GO:0071230 IEA
    cellular response to transforming growth factor beta stimulus GO:0071560 IEA
    positive regulation of smooth muscle cell chemotaxis GO:0071673 IEA
    positive regulation of glomerular mesangial cell proliferation GO:0072126 IEA
    positive regulation of monocyte extravasation GO:2000439 IEA
Subcellular Localization
    Golgi membrane GO:0000139 TAS
    extracellular region GO:0005576 TAS
    extracellular space GO:0005615 IBA
    endoplasmic reticulum lumen GO:0005788 TAS
 Experiment description of studies that identified PDGFD in sEVs
1
Experiment ID 489
MISEV standards
✔
EM
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
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
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
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
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
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
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
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 363
MISEV standards
✘ Biophysical techniques
✔
TSG101|GAPDH|AQP1|CD151|CD81|CD82|CD9|EPCAM|FLOT1|FLOT2|ICAM1|ITGA2B|LAMP2|RAB35|RAB5A|RAB5B|SDCBP|TFRC|UCHL1
Enriched markers
✔
DCLK1
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 33991177    
Organism Homo sapiens
Experiment description Cancer stem cell marker DCLK1 reprograms small extracellular vesicles toward migratory phenotype in gastric cancer cells
Authors "Carli ALE, Afshar-Sterle S, Rai A, Fang H, O'Keefe R, Tse J, Ferguson FM, Gray NS, Ernst M, Greening DW, Buchert M."
Journal name Proteomics
Publication year 2021
Sample Gastric cancer cells
Sample name MKN1 - 100K pellet
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
6
Experiment ID 364
MISEV standards
✘ Biophysical techniques
✔
TSG101|GAPDH|AQP1|CD151|CD81|CD82|CD9|EPCAM|FLOT1|FLOT2|ICAM1|ITGA2B|LAMP2|RAB35|RAB5A|RAB5B|SDCBP|TFRC|UCHL1
Enriched markers
✔
DCLK1
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 33991177    
Organism Homo sapiens
Experiment description Cancer stem cell marker DCLK1 reprograms small extracellular vesicles toward migratory phenotype in gastric cancer cells
Authors "Carli ALE, Afshar-Sterle S, Rai A, Fang H, O'Keefe R, Tse J, Ferguson FM, Gray NS, Ernst M, Greening DW, Buchert M."
Journal name Proteomics
Publication year 2021
Sample Gastric cancer cells
Sample name MKN1 - 100K pellet
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
7
Experiment ID 365
MISEV standards
✘ Biophysical techniques
✔
TSG101|GAPDH|AQP1|CD151|CD81|CD82|CD9|EPCAM|FLOT1|FLOT2|ICAM1|ITGA2B|LAMP2|RAB35|RAB5A|RAB5B|SDCBP|TFRC|UCHL1
Enriched markers
✔
DCLK1
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 33991177    
Organism Homo sapiens
Experiment description Cancer stem cell marker DCLK1 reprograms small extracellular vesicles toward migratory phenotype in gastric cancer cells
Authors "Carli ALE, Afshar-Sterle S, Rai A, Fang H, O'Keefe R, Tse J, Ferguson FM, Gray NS, Ernst M, Greening DW, Buchert M."
Journal name Proteomics
Publication year 2021
Sample Gastric cancer cells
Sample name MKN1 - 100K pellet
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 PDGFD
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 DCTN1 1639
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
2 KLHL22 84861
Affinity Capture-MS Homo sapiens
3 NEURL4  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
4 PRKCI 5584
Affinity Capture-MS Homo sapiens
5 ECI2 10455
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
6 POTEE 445582
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
7 SEH1L 81929
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
8 DCTN3 11258
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
9 ACTR1B 10120
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
10 UBR1 197131
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
11 GID4  
Affinity Capture-MS Homo sapiens
12 ACTR1A 10121
Affinity Capture-MS Homo sapiens
13 ACTR10 55860
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
14 DCTN2 10540
Affinity Capture-MS Homo sapiens
15 UBR5 51366
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
16 DCTN5 84516
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
17 DCTN6 10671
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
18 LRP2 4036
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
19 HERC2 8924
Affinity Capture-MS Homo sapiens
20 DCTN4 51164
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
21 MAEA 10296
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
View the network image/svg+xml
 Pathways in which PDGFD is involved
PathwayEvidenceSource
Signal Transduction TAS Reactome
Signaling by PDGF TAS Reactome
Signaling by Receptor Tyrosine Kinases TAS Reactome





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