Gene description for USP3
Gene name ubiquitin specific peptidase 3
Gene symbol USP3
Other names/aliases SIH003
UBP
Species Homo sapiens
 Database cross references - USP3
ExoCarta ExoCarta_9960
Vesiclepedia VP_9960
Entrez Gene 9960
HGNC 12626
MIM 604728
UniProt Q9Y6I4  
 USP3 identified in exosomes derived from the following tissue/cell type
Hepatocytes 26054723    
 Gene ontology annotations for USP3
Molecular Function
    RNA polymerase II cis-regulatory region sequence-specific DNA binding GO:0000978 IEA
    cysteine-type deubiquitinase activity GO:0004843 IMP
    zinc ion binding GO:0008270 IEA
    histone binding GO:0042393 IPI
    histone H2B deubiquitinase activity GO:0140936 IMP
    histone H2A deubiquitinase activity GO:0140950 IMP
    promoter-specific chromatin binding GO:1990841 IEA
Biological Process
    negative regulation of transcription by RNA polymerase II GO:0000122 IEA
    DNA repair GO:0006281 IMP
    proteolysis GO:0006508 IEA
    protein deubiquitination GO:0016579 IEA
    DNA repair-dependent chromatin remodeling GO:0140861 IDA
Subcellular Localization
    chromatin GO:0000785 IDA
    nucleus GO:0005634 IBA
    nucleoplasm GO:0005654 IDA
    nucleoplasm GO:0005654 TAS
    cytoplasm GO:0005737 IBA
    cytoplasmic ribonucleoprotein granule GO:0036464 IDA
    Flemming body GO:0090543 IDA
 Experiment description of studies that identified USP3 in exosomes
1
Experiment ID 237
MISEV standards
EM
Biophysical techniques
TSG101|Alix|HSC70|GAPDH
Enriched markers
HSP90B1
Negative markers
qNano
Particle analysis
Identified molecule mRNA
Identification method RNA Sequencing
PubMed ID 26054723    
Organism Homo sapiens
Experiment description Hepatocellular carcinoma-derived exosomes promote motility of immortalized hepatocyte through transfer of oncogenic proteins and RNAs
Authors "He M, Qin H, Poon TC, Sze SC, Ding X, Co NN, Ngai SM, Chan TF, Wong N"
Journal name Carcinogenesis
Publication year 2015
Sample Hepatocytes
Sample name MIHA
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Sucrose density gradient
Flotation density 1.13-1.19 g/mL
Molecules identified in the study Protein
RNA
Methods used in the study Western blotting
Mass spectrometry
RNA Sequencing
 Protein-protein interactions for USP3
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 ATP6V1H 51606
Co-fractionation Homo sapiens
2 SACS 26278
Affinity Capture-MS Homo sapiens
3 EIF3A 8661
Affinity Capture-MS Homo sapiens
4 DHX15 1665
Co-fractionation Homo sapiens
5 NT5E 4907
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
6 EIF3F 8665
Affinity Capture-MS Homo sapiens
7 FASN 2194
Negative Genetic Homo sapiens
8 PKLR 5313
Affinity Capture-MS Homo sapiens
9 TOR1AIP2 163590
Affinity Capture-MS Homo sapiens
10 EIF3C 8663
Affinity Capture-MS Homo sapiens
11 HIST1H4A 8359
Affinity Capture-MS Homo sapiens
12 EIF4G1 1981
Affinity Capture-MS Homo sapiens
13 CDC25A  
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
14 RIMBP2  
Affinity Capture-MS Homo sapiens
15 HIST1H2BG 8339
Proximity Label-MS Homo sapiens
16 GPC1 2817
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
17 RSU1 6251
Co-fractionation Homo sapiens
18 COL6A5  
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
19 IFIH1  
Affinity Capture-Western Homo sapiens
Biochemical Activity Homo sapiens
20 HIST1H2BB 3018
Affinity Capture-Western Homo sapiens
21 UBC 7316
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Reconstituted Complex Homo sapiens
Reconstituted Complex Homo sapiens
Biochemical Activity Homo sapiens
22 ELAVL1 1994
Affinity Capture-RNA Homo sapiens
23 EIF3G 8666
Affinity Capture-MS Homo sapiens
24 TXNDC17 84817
Co-fractionation Homo sapiens
25 DDX58 23586
Affinity Capture-Western Homo sapiens
Biochemical Activity Homo sapiens
26 PRRC2B  
Affinity Capture-MS Homo sapiens
27 WDTC1 23038
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
28 SH3BGRL3 83442
Co-fractionation Homo sapiens
29 LRP1 4035
Affinity Capture-MS Homo sapiens
30 TMEM173  
Affinity Capture-Western Homo sapiens
31 GNAL 2774
Affinity Capture-MS Homo sapiens
32 CBR3 874
Affinity Capture-MS Homo sapiens
33 TXLNG  
Co-fractionation Homo sapiens
34 COL9A3  
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
35 RPA3 6119
Proximity Label-MS Homo sapiens
36 EIF3B 8662
Affinity Capture-MS Homo sapiens
37 LDLR 3949
Negative Genetic Homo sapiens
38 OTULIN 90268
Affinity Capture-MS Homo sapiens
39 GNA13 10672
Affinity Capture-MS Homo sapiens
40 ZFAND6  
Co-fractionation Homo sapiens
41 ISLR 3671
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
42 PDZK1 5174
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
43 REST 5978
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Co-localization Homo sapiens
44 EIF3I 8668
Affinity Capture-MS Homo sapiens
45 NXN 64359
Affinity Capture-MS Homo sapiens
46 HIST1H2AB 8335
Affinity Capture-Western Homo sapiens
47 EIF3D 8664
Affinity Capture-MS Homo sapiens
48 EIF3H 8667
Affinity Capture-MS Homo sapiens
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