Gene description for RNF40
Gene name ring finger protein 40, E3 ubiquitin protein ligase
Gene symbol RNF40
Other names/aliases BRE1B
RBP95
STARING
Species Homo sapiens
 Database cross references - RNF40
ExoCarta ExoCarta_9810
Vesiclepedia VP_9810
Entrez Gene 9810
HGNC 16867
MIM 607700
UniProt O75150  
 RNF40 identified in exosomes derived from the following tissue/cell type
Colorectal cancer cells 23161513    
Colorectal cancer cells 23161513    
Colorectal cancer cells 23161513    
Mesenchymal stem cells Unpublished / Not applicable
Thymus 23844026    
 Gene ontology annotations for RNF40
Molecular Function
    mRNA 3'-UTR binding GO:0003730 IDA
    ubiquitin-protein transferase activity GO:0004842 IDA
    protein binding GO:0005515 IPI
    ubiquitin protein ligase binding GO:0031625 IPI
    protein homodimerization activity GO:0042803 IPI
    metal ion binding GO:0046872 IEA
    ubiquitin protein ligase activity GO:0061630 IBA
Biological Process
    chromatin organization GO:0006325 IEA
    ubiquitin-dependent protein catabolic process GO:0006511 ISS
    regulation of mitotic cell cycle GO:0007346 IMP
    protein ubiquitination GO:0016567 IEA
    positive regulation of transcription by RNA polymerase II GO:0045944 IDA
Subcellular Localization
    ubiquitin ligase complex GO:0000151 IDA
    nucleus GO:0005634 IBA
    nucleus GO:0005634 IDA
    nucleoplasm GO:0005654 IDA
    nucleoplasm GO:0005654 TAS
    membrane GO:0016020 HDA
    HULC complex GO:0033503 IBA
    HULC complex GO:0033503 IDA
    neuron projection GO:0043005 ISS
 Experiment description of studies that identified RNF40 in exosomes
1
Experiment ID 207
MISEV standards
EM
Biophysical techniques
TSG101|HSP70|FLOT1
Enriched markers
VDAC
Negative markers
NTA
Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23161513    
Organism Homo sapiens
Experiment description Proteomic analysis of exosomes from mutant KRAS colon cancer cells identifies intercellular transfer of mutant KRAS.
Authors "Demory Beckler M, Higginbotham JN, Franklin JL, Ham AJ, Halvey PJ, Imasuen IE, Whitwell C, Li M, Liebler DC, Coffey RJ."
Journal name Mol Cell Proteomics
Publication year 2012
Sample Colorectal cancer cells
Sample name DKO-1
Isolation/purification methods Differential centrifugation
Filtration
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
2
Experiment ID 208
MISEV standards
EM
Biophysical techniques
TSG101|HSP70|FLOT1
Enriched markers
VDAC
Negative markers
NTA
Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23161513    
Organism Homo sapiens
Experiment description Proteomic analysis of exosomes from mutant KRAS colon cancer cells identifies intercellular transfer of mutant KRAS.
Authors "Demory Beckler M, Higginbotham JN, Franklin JL, Ham AJ, Halvey PJ, Imasuen IE, Whitwell C, Li M, Liebler DC, Coffey RJ."
Journal name Mol Cell Proteomics
Publication year 2012
Sample Colorectal cancer cells
Sample name Dks-8
Isolation/purification methods Differential centrifugation
Filtration
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
3
Experiment ID 209
MISEV standards
Biophysical techniques
TSG101|HSP70|FLOT1
Enriched markers
VDAC
Negative markers
NTA
Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23161513    
Organism Homo sapiens
Experiment description Proteomic analysis of exosomes from mutant KRAS colon cancer cells identifies intercellular transfer of mutant KRAS.
Authors "Demory Beckler M, Higginbotham JN, Franklin JL, Ham AJ, Halvey PJ, Imasuen IE, Whitwell C, Li M, Liebler DC, Coffey RJ."
Journal name Mol Cell Proteomics
Publication year 2012
Sample Colorectal cancer cells
Sample name DLD-1
Isolation/purification methods Differential centrifugation
Filtration
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
4
Experiment ID 126
MISEV standards
Biophysical techniques
GAPDH
Enriched markers
Negative markers
Particle analysis
Identified molecule protein
Identification method Mass spectrometry [LTQ-FT Ultra]
PubMed ID Unpublished / Not applicable
Organism Homo sapiens
Experiment description Mesenchymal Stem Cell Exosomes: The Future MSC-based Therapy?
Authors "Ruenn Chai Lai, Ronne Wee Yeh Yeo, Soon Sim Tan, Bin Zhang, Yijun Yin, Newman Siu Kwan Sze, Andre Choo, and Sai Kiang Lim"
Journal name Mesenchymal Stem Cell Therapy
Publication year 2011
Sample Mesenchymal stem cells
Sample name huES9.E1
Isolation/purification methods HPLC
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Antobody array
Mass spectrometry
5
Experiment ID 217
MISEV standards
EM
Biophysical techniques
TSG101|CD81|CD9|CD63
Enriched markers
Negative markers
NTA
Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23844026    
Organism Homo sapiens
Experiment description Characterization of human thymic exosomes.
Authors "Skogberg G, Gudmundsdottir J, van der Post S, Sandstrom K, Bruhn S, Benson M, Mincheva-Nilsson L, Baranov V, Telemo E, Ekwall O."
Journal name PLoS One
Publication year 2013
Sample Thymus
Sample name Normal-Thymus
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
 Protein-protein interactions for RNF40
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 TRAIP  
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
2 SNX32  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
3 NOMO1 23420
Affinity Capture-MS Homo sapiens
4 HIST2H2BE 8349
Biochemical Activity Homo sapiens
Biochemical Activity Homo sapiens
5 MCMBP 79892
Co-fractionation Homo sapiens
6 FOXC1  
Affinity Capture-MS Homo sapiens
7 TEX13A  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
8 NCBP1 4686
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
9 UBE2A  
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
10 ZNF326 284695
Affinity Capture-MS Homo sapiens
11 TRIM51  
Two-hybrid Homo sapiens
12 FBXO4 26272
Co-fractionation Homo sapiens
13 TCEB3 6924
Co-fractionation Homo sapiens
14 RBM12B  
Affinity Capture-MS Homo sapiens
15 SYCE1  
Affinity Capture-MS Homo sapiens
16 NAPA 8775
Co-fractionation Homo sapiens
17 TPD52L1 7164
Co-fractionation Homo sapiens
18 KLC3  
Affinity Capture-MS Homo sapiens
19 NUP62 23636
Affinity Capture-MS Homo sapiens
20 CTNNBL1 56259
Affinity Capture-MS Homo sapiens
21 GAPDHS 26330
Affinity Capture-MS Homo sapiens
22 MPO 4353
Affinity Capture-MS Homo sapiens
23 NUPL1 9818
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
24 Zbtb48  
Affinity Capture-MS Mus musculus
25 ATM 472
Co-fractionation Homo sapiens
Affinity Capture-Western Homo sapiens
Biochemical Activity Homo sapiens
Affinity Capture-Western Homo sapiens
26 KRT82 3888
Affinity Capture-MS Homo sapiens
27 CAND1 55832
Co-fractionation Homo sapiens
28 HNRNPR 10236
Affinity Capture-MS Homo sapiens
29 MORC1  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
30 PTPN1 5770
Co-fractionation Homo sapiens
31 IL36A  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
32 LTF 4057
Affinity Capture-MS Homo sapiens
33 UBE2N 7334
Co-fractionation Homo sapiens
34 SEPT2 4735
Co-fractionation Homo sapiens
35 TRAF2 7186
Co-fractionation Homo sapiens
36 HSPA5 3309
Affinity Capture-MS Homo sapiens
37 KIAA1429 25962
Affinity Capture-MS Homo sapiens
38 WTAP 9589
Affinity Capture-MS Homo sapiens
39 FCGR3A  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
40 MBIP  
Affinity Capture-MS Homo sapiens
41 RNPS1 10921
Affinity Capture-MS Homo sapiens
42 STX1A 6804
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
43 IMPDH2 3615
Co-fractionation Homo sapiens
44 C9orf16  
Affinity Capture-MS Homo sapiens
45 CIAPIN1 57019
Co-fractionation Homo sapiens
46 S100P 6286
Affinity Capture-MS Homo sapiens
47 Dtl  
Affinity Capture-MS Mus musculus
48 MAGOHB 55110
Affinity Capture-MS Homo sapiens
49 NFIC 4782
Co-fractionation Homo sapiens
50 BRCC3 79184
Co-fractionation Homo sapiens
51 TRABD 80305
Affinity Capture-MS Homo sapiens
52 ZNF460  
Affinity Capture-MS Homo sapiens
53 CCDC53 51019
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
54 OIP5  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
55 CUL4A 8451
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
56 PLCG1 5335
Co-fractionation Homo sapiens
57 ZNF451 26036
Two-hybrid Homo sapiens
58 EPS15L1 58513
Affinity Capture-MS Homo sapiens
59 MSL2  
Co-fractionation Homo sapiens
Co-fractionation Homo sapiens
60 CCDC115 84317
Affinity Capture-MS Homo sapiens
61 FAM196A  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
62 PFN2 5217
Co-fractionation Homo sapiens
63 PRTN3 5657
Affinity Capture-MS Homo sapiens
64 KNSTRN  
Affinity Capture-MS Homo sapiens
65 THOC1 9984
Affinity Capture-MS Homo sapiens
66 RBM8A 9939
Affinity Capture-MS Homo sapiens
67 MED4 29079
Affinity Capture-MS Homo sapiens
68 NINL  
Two-hybrid Homo sapiens
69 MTNR1B  
Two-hybrid Homo sapiens
70 C15orf59  
Affinity Capture-MS Homo sapiens
71 RB1 5925
Two-hybrid Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
72 AMOTL2 51421
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
73 NSUN2 54888
Co-fractionation Homo sapiens
74 TCP10L  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
75 MIB1 57534
Proximity Label-MS Homo sapiens
76 HIST1H4A 8359
Affinity Capture-MS Homo sapiens
77 USP10 9100
Cross-Linking-MS (XL-MS) Homo sapiens
78 HTATIP2 10553
Co-fractionation Homo sapiens
79 RUFY1 80230
Co-fractionation Homo sapiens
80 SFR1 119392
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
81 TMEM189-UBE2V1 387522
Co-fractionation Homo sapiens
82 CCT7 10574
Co-fractionation Homo sapiens
83 MED21  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
84 SRRT 51593
Affinity Capture-MS Homo sapiens
85 SNRNP200 23020
Affinity Capture-MS Homo sapiens
86 WDR61 80349
Co-fractionation Homo sapiens
87 UBE2I 7329
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
88 RPS6KB1 6198
Co-fractionation Homo sapiens
89 IWS1  
Affinity Capture-MS Homo sapiens
90 SAFB2 9667
Affinity Capture-MS Homo sapiens
91 PFDN2 5202
Co-fractionation Homo sapiens
92 DDX5 1655
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
93 NTRK1 4914
Affinity Capture-MS Homo sapiens
94 IFI16 3428
Affinity Capture-MS Homo sapiens
95 PRPF8 10594
Affinity Capture-MS Homo sapiens
96 NELL2  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
97 KIF11 3832
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Biochemical Activity Homo sapiens
98 PLEKHO2 80301
Affinity Capture-MS Homo sapiens
99 UBE2L6 9246
Affinity Capture-Western Homo sapiens
100 ITGA5 3678
Affinity Capture-MS Homo sapiens
101 PHACTR2  
Co-fractionation Homo sapiens
102 BRAP  
Co-fractionation Homo sapiens
103 SUPT6H 6830
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
104 CAPZB 832
Co-fractionation Homo sapiens
105 DNAJB11 51726
Co-fractionation Homo sapiens
106 SNAP29 9342
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
107 DSN1 79980
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
108 G0S2  
Affinity Capture-MS Homo sapiens
109 PHF21B  
Affinity Capture-MS Homo sapiens
110 BCLAF1 9774
Affinity Capture-MS Homo sapiens
111 DISC1 27185
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
112 NUMA1 4926
Co-fractionation Homo sapiens
113 UBE2S  
Affinity Capture-MS Homo sapiens
114 EIF4B 1975
Co-fractionation Homo sapiens
115 RNF40 9810
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
116 WHAMMP3  
Affinity Capture-MS Homo sapiens
117 CDC73  
Affinity Capture-Western Homo sapiens
Two-hybrid Homo sapiens
118 UPF1 5976
Co-fractionation Homo sapiens
119 TIPRL 261726
Co-fractionation Homo sapiens
120 SYT6  
Affinity Capture-MS Homo sapiens
121 USP15 9958
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
122 SNAPC4  
Affinity Capture-MS Homo sapiens
123 ZNF232  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
124 PLRG1 5356
Affinity Capture-MS Homo sapiens
125 Bmpr1a  
Affinity Capture-MS Mus musculus
126 OLFM2  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
127 UBE2E1  
Reconstituted Complex Homo sapiens
Co-fractionation Homo sapiens
128 TFPT  
Affinity Capture-MS Homo sapiens
129 FNTA 2339
Co-fractionation Homo sapiens
130 SERINC5 256987
Affinity Capture-MS Homo sapiens
131 ZC3H11A  
Affinity Capture-MS Homo sapiens
132 NXF1 10482
Affinity Capture-RNA Homo sapiens
133 YTHDC1  
Affinity Capture-MS Homo sapiens
134 EFTUD2 9343
Affinity Capture-MS Homo sapiens
135 UBE2D2 7322
Reconstituted Complex Homo sapiens
136 COG6 57511
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
137 FBXO7 25793
Co-fractionation Homo sapiens
138 ANGPT4  
Affinity Capture-MS Homo sapiens
139 DCUN1D1 54165
Co-fractionation Homo sapiens
140 PRPF19 27339
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
141 SPEN 23013
Affinity Capture-MS Homo sapiens
142 PKN1 5585
Affinity Capture-MS Homo sapiens
143 Chmp3  
Affinity Capture-MS Mus musculus
144 ZC3H18  
Affinity Capture-MS Homo sapiens
145 MSL1 339287
Co-fractionation Homo sapiens
Reconstituted Complex Homo sapiens
Co-fractionation Homo sapiens
146 TPM4 7171
Cross-Linking-MS (XL-MS) Homo sapiens
147 Sars 20226
Affinity Capture-MS Mus musculus
148 TCEB2 6923
Co-fractionation Homo sapiens
149 TXNDC5 81567
Co-fractionation Homo sapiens
150 CSDE1 7812
Co-fractionation Homo sapiens
151 AKT1 207
Co-fractionation Homo sapiens
152 CEP350 9857
Affinity Capture-MS Homo sapiens
153 TSC22D3  
Affinity Capture-MS Homo sapiens
154 ROCK1 6093
Co-fractionation Homo sapiens
155 PSMB1 5689
Co-fractionation Homo sapiens
156 WAC  
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
157 ZCCHC12  
Two-hybrid Homo sapiens
158 ZC3H13 23091
Affinity Capture-MS Homo sapiens
159 THOC7 80145
Affinity Capture-MS Homo sapiens
160 STUB1 10273
Co-fractionation Homo sapiens
161 PLEKHA4 57664
Affinity Capture-MS Homo sapiens
162 FASN 2194
Co-fractionation Homo sapiens
163 TERF2  
Affinity Capture-MS Homo sapiens
164 SIRT6  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
165 Bap1  
Affinity Capture-MS Mus musculus
166 ITSN1 6453
Two-hybrid Homo sapiens
167 CCDC85A  
Affinity Capture-MS Homo sapiens
168 MKNK1  
Affinity Capture-MS Homo sapiens
169 ERH 2079
Affinity Capture-MS Homo sapiens
170 PDIA4 9601
Cross-Linking-MS (XL-MS) Homo sapiens
171 TALDO1 6888
Affinity Capture-MS Homo sapiens
172 SRSF9 8683
Affinity Capture-MS Homo sapiens
173 POLR3H  
Affinity Capture-MS Homo sapiens
174 WNT4  
Affinity Capture-MS Homo sapiens
175 SAFB 6294
Affinity Capture-MS Homo sapiens
176 IER2 9592
Affinity Capture-MS Homo sapiens
177 THRAP3 9967
Affinity Capture-MS Homo sapiens
178 ATG101  
Affinity Capture-MS Homo sapiens
179 CMTR1 23070
Co-fractionation Homo sapiens
180 OTUB1 55611
Co-fractionation Homo sapiens
181 CCT2 10576
Co-fractionation Homo sapiens
182 GTF2H5  
Affinity Capture-MS Homo sapiens
183 RBM15 64783
Affinity Capture-MS Homo sapiens
184 RNF20 56254
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Co-purification Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Cross-Linking-MS (XL-MS) Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
185 HSP90AA1 3320
Affinity Capture-Luminescence Homo sapiens
186 MAGEA9  
Affinity Capture-MS Homo sapiens
187 DDX58 23586
Affinity Capture-RNA Homo sapiens
188 WIF1 11197
Affinity Capture-MS Homo sapiens
189 BRK1 55845
Affinity Capture-MS Homo sapiens
190 FAM50A 9130
Affinity Capture-MS Homo sapiens
191 ESR1  
Affinity Capture-Western Homo sapiens
192 CCDC146  
Two-hybrid Homo sapiens
193 UBB 7314
Affinity Capture-MS Homo sapiens
194 Srsf1 110809
Affinity Capture-MS Mus musculus
195 TERF1 7013
Affinity Capture-MS Homo sapiens
196 ALYREF 10189
Affinity Capture-MS Homo sapiens
197 KRT38 8687
Affinity Capture-MS Homo sapiens
198 UBE2B 7320
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
199 EEF1D 1936
Reconstituted Complex Homo sapiens
200 HNRNPLL 92906
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
201 RBM12 10137
Affinity Capture-MS Homo sapiens
202 CDK9 1025
Co-fractionation Homo sapiens
203 CIT 11113
Affinity Capture-MS Homo sapiens
204 KXD1 79036
Affinity Capture-MS Homo sapiens
205 METTL3  
Affinity Capture-MS Homo sapiens
206 RAD50 10111