Gene description for USP47
Gene name ubiquitin specific peptidase 47
Gene symbol USP47
Other names/aliases TRFP
Species Homo sapiens
 Database cross references - USP47
ExoCarta ExoCarta_55031
Vesiclepedia VP_55031
Entrez Gene 55031
HGNC 20076
MIM 614460
UniProt Q96K76  
 USP47 identified in exosomes 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    
Mesenchymal stem cells 36408942    
 Gene ontology annotations for USP47
Molecular Function
    cysteine-type deubiquitinase activity GO:0004843 IBA
    cysteine-type deubiquitinase activity GO:0004843 IDA
    cysteine-type deubiquitinase activity GO:0004843 TAS
    protein binding GO:0005515 IPI
    WD40-repeat domain binding GO:0071987 IPI
    deubiquitinase activity GO:0101005 IDA
Biological Process
    base-excision repair GO:0006284 IMP
    proteolysis GO:0006508 IEA
    DNA damage response GO:0006974 IMP
    intrinsic apoptotic signaling pathway in response to DNA damage GO:0008630 IEA
    response to xenobiotic stimulus GO:0009410 IMP
    negative regulation of G2/M transition of mitotic cell cycle GO:0010972 IMP
    protein deubiquitination GO:0016579 TAS
    positive regulation of cell growth GO:0030307 IMP
    regulation of protein stability GO:0031647 IBA
    cellular response to UV GO:0034644 ISS
    monoubiquitinated protein deubiquitination GO:0035520 IDA
    negative regulation of apoptotic process GO:0043066 IMP
    negative regulation of DNA-templated transcription GO:0045892 IMP
    positive regulation of canonical Wnt signaling pathway GO:0090263 IMP
    negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage GO:1902230 IEA
    negative regulation of cysteine-type endopeptidase activity GO:2000117 IMP
Subcellular Localization
    nucleus GO:0005634 IBA
    nucleus GO:0005634 IDA
    nucleoplasm GO:0005654 TAS
    cytoplasm GO:0005737 IDA
    cytosol GO:0005829 IBA
    SCF ubiquitin ligase complex GO:0019005 IDA
 Experiment description of studies that identified USP47 in exosomes
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 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
 Protein-protein interactions for USP47
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 RPL11 6135
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
2 CDC14B 8555
Affinity Capture-MS Homo sapiens
3 DENR 8562
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
4 HNRNPC 3183
Co-fractionation Homo sapiens
5 HOOK1  
Proximity Label-MS Homo sapiens
6 TBCCD1  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
7 KIFC3 3801
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
8 RPA2 6118
Proximity Label-MS Homo sapiens
9 CTNNBL1 56259
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
10 PRPSAP2 5636
Affinity Capture-MS Homo sapiens
11 UBC 7316
Reconstituted Complex Homo sapiens
12 RBM12 10137
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
13 SNX6 58533
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
14 TCEA1 6917
Affinity Capture-MS Homo sapiens
15 PPP1R12A 4659
Co-fractionation Homo sapiens
16 SNX3 8724
Affinity Capture-MS Homo sapiens
17 CRYZ 1429
Proximity Label-MS Homo sapiens
18 KIF22  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
19 PPP2R5D 5528
Affinity Capture-MS Homo sapiens
20 SPAG9 9043
Co-fractionation Homo sapiens
21 C4orf27  
Affinity Capture-MS Homo sapiens
22 MCTS1 28985
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
23 MAPK14 1432
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
24 NARS 4677
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
25 SMC2 10592
Co-fractionation Homo sapiens
26 MDC1  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
27 HELLS 3070
Affinity Capture-MS Homo sapiens
28 SPATA20  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
29 TULP3 7289
Affinity Capture-MS Homo sapiens
30 KNDC1  
Affinity Capture-MS Homo sapiens
31 PSMD5 5711
Co-fractionation Homo sapiens
32 PHF1  
Affinity Capture-MS Homo sapiens
33 POLR2M  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
34 RECQL 5965
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
35 MTA2 9219
Co-fractionation Homo sapiens
36 RBPJ 3516
Affinity Capture-MS Homo sapiens
37 FEN1 2237
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
38 ADSL 158
Affinity Capture-MS Homo sapiens
39 AGO2 27161
Affinity Capture-RNA Homo sapiens
Affinity Capture-RNA Homo sapiens
40 CHMP4C 92421
Affinity Capture-MS Homo sapiens
41 AURKA 6790
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
42 DPYSL4 10570
Affinity Capture-MS Homo sapiens
43 UBE2T  
Affinity Capture-MS Homo sapiens
44 PARK2  
Affinity Capture-MS Homo sapiens
45 VRK1 7443
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
46 DNAJC2 27000
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
47 WRAP73 49856
Affinity Capture-MS Homo sapiens
48 BACH1 571
Affinity Capture-Western Homo sapiens
49 EFHD2 79180
Affinity Capture-MS Homo sapiens
50 PDXDC1 23042
Co-fractionation Homo sapiens
51 TCEA3  
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
52 MYH9 4627
Co-fractionation Homo sapiens
53 PPP1R8 5511
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
54 NTRK1 4914
Affinity Capture-MS Homo sapiens
55 FOXK2  
Affinity Capture-MS Homo sapiens
56 SAR1B 51128
Affinity Capture-MS Homo sapiens
57 ASTE1  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
58 MYH10 4628
Co-fractionation Homo sapiens
59 POLB 5423
Affinity Capture-Western Homo sapiens
60 LYPLA1 10434
Affinity Capture-MS Homo sapiens
61 FAM124B  
Affinity Capture-MS Homo sapiens
62 PAK2 5062
Affinity Capture-MS Homo sapiens
63 RAD21 5885
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
64 SF3A3 10946
Affinity Capture-MS Homo sapiens
65 CCNO  
Affinity Capture-MS Homo sapiens
66 PPP1R12B 4660
Affinity Capture-MS Homo sapiens
67 TOMM34 10953
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
68 GMPPB 29925
Co-fractionation Homo sapiens
69 DDI1  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
70 RPS2 6187
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
71 XPO1 7514
Affinity Capture-MS Homo sapiens
72 COL20A1  
Affinity Capture-MS Homo sapiens
73 CLPP 8192
Affinity Capture-MS Homo sapiens
74 SIRT7  
Affinity Capture-MS Homo sapiens
75 LETM1 3954
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
76 FGF12  
Affinity Capture-MS Homo sapiens
77 NAA15 80155
Affinity Capture-MS Homo sapiens
78 TRAF6 7189
Affinity Capture-Western Homo sapiens
79 NR3C1 2908
Proximity Label-MS Homo sapiens
80 RPRD1A  
Affinity Capture-MS Homo sapiens
81 ETF1 2107
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
82 VAMP3 9341
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
83 OBFC1 79991
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
84 FARSB 10056
Affinity Capture-MS Homo sapiens
85 LAMTOR5 10542
Affinity Capture-MS Homo sapiens
86 BTRC 8945
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
87 PLS1 5357
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
88 INPP5K 51763
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
89 IST1 9798
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
90 RND2  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
91 RPA3 6119
Proximity Label-MS Homo sapiens
92 EEF1A2 1917
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
93 RHPN1  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
94 HDLBP 3069
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
95 PLA2G2A 5320
Biochemical Activity Homo sapiens
96 WDR44 54521
Co-fractionation Homo sapiens
97 HOGA1  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
98 LRRC40 55631
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
99 PUS1 80324
Affinity Capture-MS Homo sapiens
100 FOXK1 221937
Affinity Capture-MS Homo sapiens
101 UBXN1 51035
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
102 PPME1 51400
Affinity Capture-MS Homo sapiens
103 SATB1 6304
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Co-localization Homo sapiens
104 ATP6V1H 51606
Co-fractionation Homo sapiens
105 ZRANB1 54764
Affinity Capture-MS Homo sapiens
106 YBX1 4904
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
107 GRK5 2869
Affinity Capture-MS Homo sapiens
108 SNCA 6622
Protein-peptide Homo sapiens
109 FBXW11  
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
110 ADAT3 113179
Affinity Capture-MS Homo sapiens
111 AVIL  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
112 SYAP1 94056
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
113 EEA1 8411
Affinity Capture-MS Homo sapiens
114 TRMT2A 27037
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
115 HMGN5 79366
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
116 NSDHL 50814
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
117 KATNA1 11104
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
118 OTUB1 55611
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
119 NUP35 129401
Affinity Capture-MS Homo sapiens
120 Hdac6  
Affinity Capture-MS Mus musculus
Affinity Capture-MS Mus musculus
121 NCF2 4688
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
122 HIBCH 26275
Affinity Capture-MS Homo sapiens
123 IK 3550
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
124 TRIM31  
Affinity Capture-MS Homo sapiens
125 AP4M1 9179
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
126 CYB5R3 1727
Affinity Capture-MS Homo sapiens
127 RPRD1B 58490
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
128 SERBP1 26135
Affinity Capture-MS Homo sapiens
129 DDI2 84301
Affinity Capture-MS Homo sapiens
130 QRSL1  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
131 ATOH1  
Affinity Capture-MS Homo sapiens
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