Gene description for DDX47
Gene name DEAD (Asp-Glu-Ala-Asp) box polypeptide 47
Gene symbol DDX47
Other names/aliases E4-DBP
HQ0256
MSTP162
RRP3
Species Homo sapiens
 Database cross references - DDX47
ExoCarta ExoCarta_51202
Vesiclepedia VP_51202
Entrez Gene 51202
HGNC 18682
MIM 615428
UniProt Q9H0S4  
 DDX47 identified in exosomes derived from the following tissue/cell type
Chondrocytes 35931686    
Chondrocytes 35931686    
Mesenchymal stem cells 36408942    
Ovarian cancer cells 23333927    
Ovarian cancer cells 23333927    
 Gene ontology annotations for DDX47
Molecular Function
    DNA clamp loader activity GO:0003689 IEA
    RNA binding GO:0003723 HDA
    RNA helicase activity GO:0003724 IEA
    protein binding GO:0005515 IPI
    ATP binding GO:0005524 IEA
    ATP hydrolysis activity GO:0016887 IEA
    cohesin loader activity GO:0061775 IEA
    chromatin extrusion motor activity GO:0140584 IEA
    ATP-dependent H3-H4 histone complex chaperone activity GO:0140665 IEA
    ATP-dependent H2AZ histone chaperone activity GO:0140849 IEA
Biological Process
    chromatin remodeling GO:0006338 IEA
    rRNA processing GO:0006364 IBA
    rRNA processing GO:0006364 IMP
    mRNA processing GO:0006397 IEA
    RNA splicing GO:0008380 IMP
    extrinsic apoptotic signaling pathway via death domain receptors GO:0008625 IDA
    chromatin looping GO:0140588 IEA
Subcellular Localization
    nucleus GO:0005634 IBA
    nucleoplasm GO:0005654 TAS
    nucleolus GO:0005730 IDA
    membrane GO:0016020 HDA
 Experiment description of studies that identified DDX47 in exosomes
1
Experiment ID 497
MISEV standards
Biophysical techniques
CD9|CD151|CD63|CD81|CD82|FLOT1|FLOT2|GAPDH|LAMP1|LAMP2|RAB5A|SDCBP|TFRC|TSG101|UCHL1
Enriched markers
Negative markers
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 35931686    
Organism Homo sapiens
Experiment description Extracellular vesicles enriched in connexin 43 promote a senescent phenotype in bone and synovial cells contributing to osteoarthritis progression
Authors "Varela-Eirín M, Carpintero-Fernández P, Guitián-Caamaño A, Varela-Vázquez A, García-Yuste A, Sánchez-Temprano A, Bravo-López SB, Yañez-Cabanas J, Fonseca E, Largo R, Mobasheri A, Caeiro JR, Mayán MD."
Journal name Cell Death Dis
Publication year 2022
Sample Chondrocytes
Sample name T/C-28a2
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 498
MISEV standards
EM
Biophysical techniques
CD9|CD151|CD63|CD81|CD82|FLOT1|FLOT2|GAPDH|LAMP1|LAMP2|RAB5A|SDCBP|TFRC|TSG101|UCHL1
Enriched markers
Negative markers
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 35931686    
Organism Homo sapiens
Experiment description Extracellular vesicles enriched in connexin 43 promote a senescent phenotype in bone and synovial cells contributing to osteoarthritis progression
Authors "Varela-Eirín M, Carpintero-Fernández P, Guitián-Caamaño A, Varela-Vázquez A, García-Yuste A, Sánchez-Temprano A, Bravo-López SB, Yañez-Cabanas J, Fonseca E, Largo R, Mobasheri A, Caeiro JR, Mayán MD."
Journal name Cell Death Dis
Publication year 2022
Sample Chondrocytes
Sample name T/C-28a2
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 488
MISEV standards
EM
Biophysical techniques
CD9|CD81|CD63|GAPDH|SDCBP|LAMP1|TFRC|UCHL1|FLOT2|LAMP2|FLOT1|ICAM1|RAB5B|CD151|RAB35|TSG101|RAB5A|CD82
Enriched markers
CANX
Negative markers
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Homo sapiens
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 Mesenchymal stem cells
Sample name UCMSC
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 211
MISEV standards
EM
Biophysical techniques
TSG101|Alix|EpCAM|TFRC
Enriched markers
cytochrome c|GOLGA2
Negative markers
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
MISEV standards
CEM
Biophysical techniques
TSG101|Alix|EpCAM|TFRC
Enriched markers
Cytochrome C|GOLGA2
Negative markers
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 DDX47
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 UBE2H 7328
Affinity Capture-MS Homo sapiens
2 SPRTN  
Affinity Capture-MS Homo sapiens
3 NOP58 51602
Co-fractionation Homo sapiens
4 COIL  
Proximity Label-MS Homo sapiens
5 RBM15B  
Co-fractionation Homo sapiens
6 BTF3 689
Affinity Capture-MS Homo sapiens
7 ESF1 51575
Affinity Capture-MS Homo sapiens
8 RPL10 6134
Affinity Capture-MS Homo sapiens
9 KIF20A 10112
Affinity Capture-MS Homo sapiens
10 CAND1 55832
Affinity Capture-MS Homo sapiens
11 APP 351
Reconstituted Complex Homo sapiens
12 USP36  
Affinity Capture-MS Homo sapiens
13 NOL8  
Affinity Capture-MS Homo sapiens
14 Rrp1b 72462
Affinity Capture-MS Mus musculus
15 WDR74 54663
Co-fractionation Homo sapiens
16 PRC1 9055
Affinity Capture-MS Homo sapiens
17 NPM1 4869
Affinity Capture-MS Homo sapiens
18 PARVA 55742
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
19 POU5F1  
Affinity Capture-MS Homo sapiens
20 OBSL1 23363
Affinity Capture-MS Homo sapiens
21 KRAS 3845
Negative Genetic Homo sapiens
Two-hybrid Homo sapiens
22 EXOSC4 54512
Co-fractionation Homo sapiens
23 EED  
Affinity Capture-MS Homo sapiens
24 DDX18 8886
Co-fractionation Homo sapiens
25 Eif3i 54709
Affinity Capture-MS Mus musculus
26 MECP2 4204
Affinity Capture-MS Homo sapiens
27 Eif3a 13669
Affinity Capture-MS Mus musculus
28 MYCN  
Affinity Capture-MS Homo sapiens
29 CDC5L 988
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
30 RPS11 6205
Affinity Capture-MS Homo sapiens
31 KIF14 9928
Affinity Capture-MS Homo sapiens
32 PRNP 5621
Reconstituted Complex Homo sapiens
33 E2F4  
Affinity Capture-MS Homo sapiens
34 HIST1H4A 8359
Affinity Capture-MS Homo sapiens
35 PARK2  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
36 SRSF3 6428
Co-fractionation Homo sapiens
37 PSMD14 10213
Affinity Capture-MS Homo sapiens
38 NOP2 4839
Co-fractionation Homo sapiens
39 AKR7L 246181
Affinity Capture-MS Homo sapiens
40 Srp72  
Affinity Capture-MS Mus musculus
41 CHMP4B 128866
Affinity Capture-MS Homo sapiens
42 RPA2 6118
Proximity Label-MS Homo sapiens
43 OGT 8473
Reconstituted Complex Homo sapiens
44 IFI16 3428
Affinity Capture-MS Homo sapiens
45 HECTD1 25831
Affinity Capture-MS Homo sapiens
46 HDAC5 10014
Affinity Capture-MS Homo sapiens
47 GTPBP4 23560
Co-fractionation Homo sapiens
48 CYLD  
Affinity Capture-MS Homo sapiens
49 SRPK1 6732
Biochemical Activity Homo sapiens
50 ANLN 54443
Affinity Capture-MS Homo sapiens
51 FANCD2  
Affinity Capture-MS Homo sapiens
52 ABT1 29777
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
53 XPO1 7514
Affinity Capture-MS Homo sapiens
54 PANX1 24145
Proximity Label-MS Homo sapiens
55 CD6 923
Affinity Capture-MS Homo sapiens
56 NR3C1 2908
Proximity Label-MS Homo sapiens
57 DCAF13 25879
Co-fractionation Homo sapiens
58 EGFR 1956
Affinity Capture-MS Homo sapiens
Negative Genetic Homo sapiens
59 FN1 2335
Affinity Capture-MS Homo sapiens
60 AP2M1 1173
Co-fractionation Homo sapiens
61 MYC  
Affinity Capture-MS Homo sapiens
62 RPA3 6119
Proximity Label-MS Homo sapiens
63 SART3 9733
Affinity Capture-MS Homo sapiens
64 DDRGK1 65992
Affinity Capture-MS Homo sapiens
65 Rpl35 66489
Affinity Capture-MS Mus musculus
66 CBWD1 55871
Affinity Capture-MS Homo sapiens
67 FTL 2512
Affinity Capture-MS Homo sapiens
68 PLEKHA4 57664
Affinity Capture-MS Homo sapiens
69 SIRT6  
Affinity Capture-MS Homo sapiens
70 HDGF 3068
Affinity Capture-MS Homo sapiens
71 SIAE 54414
Affinity Capture-MS Homo sapiens
72 FBXL6  
Affinity Capture-MS Homo sapiens
73 NOL10  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
74 MNDA 4332
Affinity Capture-MS Homo sapiens
75 POLR1C 9533
Co-fractionation Homo sapiens
76 MLH1 4292
Two-hybrid Homo sapiens
77 TRA2B 6434
Co-fractionation Homo sapiens
78 NCL 4691
Affinity Capture-MS Homo sapiens
79 Rrbp1  
Affinity Capture-MS Mus musculus
80 BRD1 23774
Affinity Capture-MS Homo sapiens
81 CUL7 9820
Affinity Capture-MS Homo sapiens
82 WISP3  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
83 HNRNPU 3192
Affinity Capture-MS Homo sapiens
84 C9orf72  
Affinity Capture-MS Homo sapiens
85 RC3H1 149041
Affinity Capture-MS Homo sapiens
86 EP300 2033
Affinity Capture-MS Homo sapiens
87 ARIH1 25820
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
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