Gene description for PDZD8
Gene name PDZ domain containing 8
Gene symbol PDZD8
Other names/aliases PDZK8
Species Homo sapiens
 Database cross references - PDZD8
ExoCarta ExoCarta_118987
Vesiclepedia VP_118987
Entrez Gene 118987
HGNC 26974
MIM 614235
UniProt Q8NEN9  
 PDZD8 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    
Endothelial cells 26027894    
 Gene ontology annotations for PDZD8
Molecular Function
    protein binding GO:0005515 IPI
    lipid binding GO:0008289 IEA
    metal ion binding GO:0046872 IEA
Biological Process
    lipid transport GO:0006869 IEA
    cytoskeleton organization GO:0007010 IMP
    regulation of cell morphogenesis GO:0022604 IMP
    mitochondrial calcium ion homeostasis GO:0051560 IBA
    mitochondrial calcium ion homeostasis GO:0051560 IDA
    mitochondrion-endoplasmic reticulum membrane tethering GO:1990456 IBA
    mitochondrion-endoplasmic reticulum membrane tethering GO:1990456 IDA
Subcellular Localization
    mitochondrion GO:0005739 IEA
    endoplasmic reticulum membrane GO:0005789 IDA
    membrane GO:0016020 HDA
    mitochondria-associated endoplasmic reticulum membrane contact site GO:0044233 IBA
    mitochondria-associated endoplasmic reticulum membrane contact site GO:0044233 IDA
 Experiment description of studies that identified PDZD8 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 226
MISEV standards
✔
EM
Biophysical techniques
✔
GAPDH|CD9|FLOT1
Enriched markers
✔
LMNA|H2AFX|ATP5A1|TOMM20
Negative markers
✘ Particle analysis
Identified molecule mRNA
Identification method Small RNA sequencing (Illumina HiSeq 2000 (Solexa)
PubMed ID 26027894    
Organism Homo sapiens
Experiment description "Quantitative and qualitative analysis of small RNAs in human endothelial cells and exosomes provides insights into localized RNA processing, degradation and sorting"
Authors "Bas W. M. van Balkom, Almut S. Eisele, D. Michiel Pegtel, Sander Bervoets, Marianne C. Verhaar"
Journal name Journal of Extracellular Vesicles
Publication year 2015
Sample Endothelial cells
Sample name HMEC-1
Isolation/purification methods Differential ultracentrifugation
Sucrose density gradient
Flotation density 1.10 g/mL
Molecules identified in the study miRNA
Protein
snoRNA
lncRNA
yRNA
snRNA
mRNA
ncRNA
mtRNA
vtRNA
scaRNA
lincRNA
Methods used in the study Small RNA sequencing (Illumina HiSeq 2000 (Solexa)
Western blotting
 Protein-protein interactions for PDZD8
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 RPSA 3921
Affinity Capture-MS Homo sapiens
2 EIF3A 8661
Affinity Capture-MS Homo sapiens
3 HSD17B11 51170
Proximity Label-MS Homo sapiens
4 RPL13A 23521
Affinity Capture-MS Homo sapiens
5 ICOSLG  
Affinity Capture-MS Homo sapiens
6 RPS20 6224
Affinity Capture-MS Homo sapiens
7 PSMD3 5709
Affinity Capture-MS Homo sapiens
8 RXFP1  
Affinity Capture-MS Homo sapiens
9 CIB2  
Affinity Capture-MS Homo sapiens
10 PCDHGA5  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
11 METTL7A 25840
Proximity Label-MS Homo sapiens
12 LAMP3  
Proximity Label-MS Homo sapiens
13 RPL30 6156
Affinity Capture-MS Homo sapiens
14 GJA1 2697
Proximity Label-MS Homo sapiens
15 SRPRB 58477
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
16 CDH5  
Affinity Capture-MS Homo sapiens
17 NACA 4666
Affinity Capture-MS Homo sapiens
18 PCDHGB4 8641
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
19 CTDNEP1 23399
Proximity Label-MS Homo sapiens
20 RPL37A 6168
Affinity Capture-MS Homo sapiens
21 RPL9 6133
Affinity Capture-MS Homo sapiens
22 RPL10 6134
Affinity Capture-MS Homo sapiens
23 KIF20A 10112
Affinity Capture-MS Homo sapiens
24 SNRNP40 9410
Affinity Capture-MS Homo sapiens
25 SEC63 11231
Proximity Label-MS Homo sapiens
26 LAMP2 3920
Proximity Label-MS Homo sapiens
27 DNAJC25 548645
Proximity Label-MS Homo sapiens
28 EIF3G 8666
Affinity Capture-MS Homo sapiens
29 RET 5979
Affinity Capture-MS Homo sapiens
30 PTPN1 5770
Proximity Label-MS Homo sapiens
31 FSHR  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
32 STX4 6810
Proximity Label-MS Homo sapiens
33 EPS15L1 58513
Affinity Capture-MS Homo sapiens
34 EIF3B 8662
Affinity Capture-MS Homo sapiens
35 YTHDF2 51441
Affinity Capture-MS Homo sapiens
36 AMHR2  
Affinity Capture-MS Homo sapiens
37 RPS18 6222
Affinity Capture-MS Homo sapiens
38 TOP2A 7153
Affinity Capture-MS Homo sapiens
39 RPL10A 4736
Affinity Capture-MS Homo sapiens
40 TEX264 51368
Affinity Capture-MS Homo sapiens
41 B3GAT1  
Proximity Label-MS Homo sapiens
42 DTX3  
Affinity Capture-MS Homo sapiens
43 BTN2A1 11120
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
44 RPL28 6158
Affinity Capture-MS Homo sapiens
45 USO1 8615
Affinity Capture-MS Homo sapiens
46 H1FX 8971
Affinity Capture-MS Homo sapiens
47 COPE 11316
Affinity Capture-MS Homo sapiens
48 HDLBP 3069
Affinity Capture-MS Homo sapiens
49 CYP19A1  
Affinity Capture-MS Homo sapiens
50 RAB3B 5865
Proximity Label-MS Homo sapiens
51 RPL24 6152
Affinity Capture-MS Homo sapiens
52 TREML2 79865
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
53 NPM1 4869
Affinity Capture-MS Homo sapiens
54 RPS8 6202
Affinity Capture-MS Homo sapiens
55 PSMC6 5706
Affinity Capture-MS Homo sapiens
56 SSR1 6745
Proximity Label-MS Homo sapiens
57 PIGH  
Affinity Capture-MS Homo sapiens
58 CLEC14A  
Affinity Capture-MS Homo sapiens
59 SCAP  
Affinity Capture-MS Homo sapiens
60 GJD3  
Proximity Label-MS Homo sapiens
61 KTN1 3895
Affinity Capture-MS Homo sapiens
62 C3orf52  
Affinity Capture-MS Homo sapiens
63 TTYH1  
Affinity Capture-MS Homo sapiens
64 DNAJC16  
Proximity Label-MS Homo sapiens
65 SLC25A46 91137
Proximity Label-MS Homo sapiens
66 CHMP4A 29082
Affinity Capture-MS Homo sapiens
67 RPS3A 6189
Affinity Capture-MS Homo sapiens
68 RAB35 11021
Proximity Label-MS Homo sapiens
69 PSMD6 9861
Affinity Capture-MS Homo sapiens
70 RPL4 6124
Affinity Capture-MS Homo sapiens
71 OR10H2  
Affinity Capture-MS Homo sapiens
72 PCDHB11  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
73 PABPC4 8761
Affinity Capture-MS Homo sapiens
74 RPS23 6228
Affinity Capture-MS Homo sapiens
75 MARCKS 4082
Proximity Label-MS Homo sapiens
76 LAMTOR1 55004
Proximity Label-MS Homo sapiens
77 LMAN1 3998
Proximity Label-MS Homo sapiens
78 EIF3J 8669
Affinity Capture-MS Homo sapiens
79 NUP155 9631
Proximity Label-MS Homo sapiens
80 KIAA1715 80856
Proximity Label-MS Homo sapiens
81 PXMP2  
Proximity Label-MS Homo sapiens
82 KCNG4  
Affinity Capture-MS Homo sapiens
83 RAB5A 5868
Proximity Label-MS Homo sapiens
84 RPL27 6155
Affinity Capture-MS Homo sapiens
85 RPS9 6203
Affinity Capture-MS Homo sapiens
86 EIF3K 27335
Affinity Capture-MS Homo sapiens
87 EVA1C  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
88 NUMA1 4926
Affinity Capture-MS Homo sapiens
89 EMD 2010
Proximity Label-MS Homo sapiens
90 TMEM116  
Affinity Capture-MS Homo sapiens
91 RPS28 6234
Affinity Capture-MS Homo sapiens
92 RPS15 6209
Affinity Capture-MS Homo sapiens
93 CXADR 1525
Proximity Label-MS Homo sapiens
94 NUP50 10762
Affinity Capture-MS Homo sapiens
95 FAM189B  
Affinity Capture-MS Homo sapiens
96 MARS 4141
Affinity Capture-MS Homo sapiens
97 GABRA6  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
98 STAU1 6780
Affinity Capture-MS Homo sapiens
99 RAB4A 5867
Proximity Label-MS Homo sapiens
100 RPL5 6125
Affinity Capture-MS Homo sapiens
101 RPL18A 6142
Affinity Capture-MS Homo sapiens
102 PFDN2 5202
Affinity Capture-MS Homo sapiens
103 PABPC1 26986
Affinity Capture-MS Homo sapiens
104 FUBP1 8880
Affinity Capture-MS Homo sapiens
105 PCDHGC4  
Affinity Capture-MS Homo sapiens
106 BARD1 580
Two-hybrid Homo sapiens
107 DDX5 1655
Affinity Capture-MS Homo sapiens
108 GNL3 26354
Affinity Capture-MS Homo sapiens
109 RPL31 6160
Affinity Capture-MS Homo sapiens
110 DHX9 1660
Affinity Capture-MS Homo sapiens
111 RPS7 6201
Affinity Capture-MS Homo sapiens
112 LRRTM1 347730
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
113 LAMP1 3916
Proximity Label-MS Homo sapiens
114 PEX14 5195
Proximity Label-MS Homo sapiens
115 RPL36 25873
Affinity Capture-MS Homo sapiens
116 STX6 10228
Proximity Label-MS Homo sapiens
117 RPL27A 6157
Affinity Capture-MS Homo sapiens
118 RPN1 6184
Proximity Label-MS Homo sapiens
119 LAGE3  
Affinity Capture-MS Homo sapiens
120 PABPN1 8106
Affinity Capture-MS Homo sapiens
121 IL17RC 84818
Affinity Capture-MS Homo sapiens
122 DDX17 10521
Affinity Capture-MS Homo sapiens
123 HNRNPL 3191
Affinity Capture-MS Homo sapiens
124 BTNL3  
Affinity Capture-MS Homo sapiens
125 RPS16 6217
Affinity Capture-MS Homo sapiens
126 DDX39B 7919
Affinity Capture-MS Homo sapiens
127 RHOT2 89941
Proximity Label-MS Homo sapiens
128 ELOVL5 60481
Proximity Label-MS Homo sapiens
129 ENAH 55740
Affinity Capture-MS Homo sapiens
130 SEC61B 10952
Proximity Label-MS Homo sapiens
131 MYH9 4627
Affinity Capture-MS Homo sapiens
132 RPL29 6159
Affinity Capture-MS Homo sapiens
133 CHRND  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
134 STAM 8027
Affinity Capture-MS Homo sapiens
135 RPL11 6135
Affinity Capture-MS Homo sapiens
136 ST13 6767
Affinity Capture-MS Homo sapiens
137 REEP5 7905
Proximity Label-MS Homo sapiens
Affinity Capture-MS Homo sapiens
138 CYP26B1  
Affinity Capture-MS Homo sapiens
139 KCNS3 3790
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
140 RPL23A 6147
Affinity Capture-MS Homo sapiens
141 TMPO 7112
Affinity Capture-MS Homo sapiens
142 RPL32 6161
Affinity Capture-MS Homo sapiens
143 RPS19 6223
Affinity Capture-MS Homo sapiens
144 PCDHB7  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
145 RPLP2 6181
Affinity Capture-MS Homo sapiens
146 RPN2 6185
Proximity Label-MS Homo sapiens
147 MAP4 4134
Affinity Capture-MS Homo sapiens
148 RPL7A 6130
Affinity Capture-MS Homo sapiens
149 RPS2 6187
Affinity Capture-MS Homo sapiens
150 LRRC59 55379
Proximity Label-MS Homo sapiens
151 PANX1 24145
Proximity Label-MS Homo sapiens
152 EIF4G1 1981
Affinity Capture-MS Homo sapiens
153 SMARCA5 8467
Affinity Capture-MS Homo sapiens
154 ZDHHC12  
Affinity Capture-MS Homo sapiens
155 PCDHAC1  
Affinity Capture-MS Homo sapiens
156 RPL35 11224
Affinity Capture-MS Homo sapiens
157 TMPRSS3  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
158 TMEM9B 56674
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
159 CCDC107  
Affinity Capture-MS Homo sapiens
160 IL22RA1 58985
Affinity Capture-MS Homo sapiens
161 BCAP31 10134
Proximity Label-MS Homo sapiens
162 HSD3B7 80270
Proximity Label-MS Homo sapiens
163 CUL3 8452
Affinity Capture-MS Homo sapiens
164 MCOLN2  
Affinity Capture-MS Homo sapiens
165 STIM1 6786
Proximity Label-MS Homo sapiens
166 RPL21 6144
Affinity Capture-MS Homo sapiens
167 RPL3 6122
Affinity Capture-MS Homo sapiens
168 KARS 3735
Affinity Capture-MS Homo sapiens
169 FKBP8 23770
Proximity Label-MS Homo sapiens
170 ARF6 382
Proximity Label-MS Homo sapiens
171 EIF4E 1977
Affinity Capture-MS Homo sapiens
172 EIF4A1 1973
Affinity Capture-MS Homo sapiens
173 METTL21B  
Affinity Capture-MS Homo sapiens
174 EPRS 2058
Affinity Capture-MS Homo sapiens
175 KCNMB3  
Affinity Capture-MS Homo sapiens
176 CYP3A7  
Affinity Capture-MS Homo sapiens
177 LARS 51520
Affinity Capture-MS Homo sapiens
178 RPLP1 6176
Affinity Capture-MS Homo sapiens
179 CYP2C18  
Affinity Capture-MS Homo sapiens
180 EFTUD2 9343
Affinity Capture-MS Homo sapiens
181 PRKACA 5566
Proximity Label-MS Homo sapiens
182 CHRNA9  
Affinity Capture-MS Homo sapiens
183 KIF11 3832
Affinity Capture-MS Homo sapiens
184 ATP2A1 487
Proximity Label-MS Homo sapiens
185 EZR 7430
Affinity Capture-MS Homo sapiens
186 GLRX3 10539
Affinity Capture-MS Homo sapiens
187 RAB9A 9367
Proximity Label-MS Homo sapiens
188 RPL35A 6165
Affinity Capture-MS Homo sapiens
189 RPL12 6136
Affinity Capture-MS Homo sapiens
190 RPL22 6146
Affinity Capture-MS Homo sapiens
191 EIF3CL 728689
Affinity Capture-MS Homo sapiens
192 CCDC124 115098
Affinity Capture-MS Homo sapiens
193 MATR3 9782
Affinity Capture-MS Homo sapiens
194 DHFRL1  
Proximity Label-MS Homo sapiens
195 RPL18 6141
Affinity Capture-MS Homo sapiens
196 ABCA2 20
Affinity Capture-MS Homo sapiens
197 COPA 1314
Affinity Capture-MS Homo sapiens
198 CYP2C9  
Proximity Label-MS Homo sapiens
199 RPL7 6129
Affinity Capture-MS Homo sapiens
200 RARS 5917
Affinity Capture-MS Homo sapiens
201 PSMD7 5713
Affinity Capture-MS Homo sapiens
202 PRPS1L1 221823
Affinity Capture-MS Homo sapiens
203 KCNK16  
Affinity Capture-MS Homo sapiens
204 RPL15 6138
Affinity Capture-MS Homo sapiens
205 XRCC5 7520
Affinity Capture-MS Homo sapiens
206 EIF3D 8664
Affinity Capture-MS Homo sapiens
207 PCDHAC2  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
208 AIMP1 9255
Affinity Capture-MS Homo sapiens
209 RPL19 6143
Affinity Capture-MS Homo sapiens
210 RPL13 6137
Affinity Capture-MS Homo sapiens
211 EIF3H 8667
Affinity Capture-MS Homo sapiens
212 SPAG9 9043
Affinity Capture-MS Homo sapiens
213 RBM8A 9939
Affinity Capture-MS Homo sapiens
214 RPS25 6230
Affinity Capture-MS Homo sapiens
215 EIF3C 8663
Affinity Capture-MS Homo sapiens
216 C1orf43 25912
Affinity Capture-MS Homo sapiens
217 ILF3 3609
Affinity Capture-MS Homo sapiens
218 IARS 3376
Affinity Capture-MS Homo sapiens
219 HLA-DMB 3109
Affinity Capture-MS Homo sapiens
220 RPL6 6128
Affinity Capture-MS Homo sapiens
221 SRP72 6731
Affinity Capture-MS Homo sapiens
222 EIF3I 8668
Affinity Capture-MS Homo sapiens
223 TCERG1 10915
Affinity Capture-MS Homo sapiens
224 HIST2H2AA3 8337
Affinity Capture-MS Homo sapiens
225 ASIC4  
Affinity Capture-MS Homo sapiens
226 PRRC2C 23215
Affinity Capture-MS Homo sapiens
227 KCNC4  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
228 CDC37 11140
Affinity Capture-MS Homo sapiens
229 VAPA 9218
Affinity Capture-MS Homo sapiens
230 RPS12 6206
Affinity Capture-MS Homo sapiens
231 KCNJ10  
Affinity Capture-MS Homo sapiens
232 HNRNPM 4670
Affinity Capture-MS Homo sapiens
233 RPS4X 6191