Gene description for PDXDC1
Gene name pyridoxal-dependent decarboxylase domain containing 1
Gene symbol PDXDC1
Other names/aliases LP8165
Species Homo sapiens
 Database cross references - PDXDC1
ExoCarta ExoCarta_23042
Vesiclepedia VP_23042
Entrez Gene 23042
HGNC 28995
MIM 614244
UniProt Q6P996  
 PDXDC1 identified in sEVs 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    
Colorectal cancer cells 23161513    
Colorectal cancer cells 23161513    
Colorectal cancer cells 23161513    
Mesenchymal stem cells 36408942    
 Gene ontology annotations for PDXDC1
Molecular Function
    carboxy-lyase activity GO:0016831 IEA
    pyridoxal phosphate binding GO:0030170 IEA
    cadherin binding GO:0045296 HDA
Biological Process
    carboxylic acid metabolic process GO:0019752 IEA
Subcellular Localization
    Golgi apparatus GO:0005794 IDA
    intracellular membrane-bounded organelle GO:0043231 IBA
    intracellular membrane-bounded organelle GO:0043231 IDA
 Experiment description of studies that identified PDXDC1 in sEVs
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 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
6
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
7
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
8
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 PDXDC1
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 GJD3  
Proximity Label-MS Homo sapiens
2 C5AR2  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
3 NPRL2  
Affinity Capture-MS Homo sapiens
4 OCLN 100506658
Proximity Label-MS Homo sapiens
5 METTL7A 25840
Proximity Label-MS Homo sapiens
6 LAMP3  
Proximity Label-MS Homo sapiens
7 GJA1 2697
Proximity Label-MS Homo sapiens
8 LPAR6  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
9 TRIM35 23087
Affinity Capture-MS Homo sapiens
10 TMEM184A  
Affinity Capture-MS Homo sapiens
11 AP5B1 91056
Affinity Capture-MS Homo sapiens
12 SLC2A1 6513
Affinity Capture-MS Homo sapiens
13 ARF3 377
Proximity Label-MS Homo sapiens
14 FPR1  
Affinity Capture-MS Homo sapiens
15 LAMP2 3920
Affinity Capture-MS Homo sapiens
Proximity Label-MS Homo sapiens
Affinity Capture-MS Homo sapiens
16 EDNRB 1910
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
17 STX4 6810
Proximity Label-MS Homo sapiens
18 FFAR1  
Affinity Capture-MS Homo sapiens
19 GPR150  
Affinity Capture-MS Homo sapiens
20 KIAA1429 25962
Affinity Capture-MS Homo sapiens
21 SLC18A2  
Affinity Capture-MS Homo sapiens
22 LAMTOR1 55004
Proximity Label-MS Homo sapiens
23 RPAIN  
Affinity Capture-MS Homo sapiens
24 B3GAT1  
Proximity Label-MS Homo sapiens
Affinity Capture-MS Homo sapiens
25 SLC15A1  
Affinity Capture-MS Homo sapiens
26 ACTR3 10096
Proximity Label-MS Homo sapiens
27 RFXANK  
Affinity Capture-MS Homo sapiens
28 FAM174A 345757
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
29 RAB3B 5865
Proximity Label-MS Homo sapiens
30 CXCR4 7852
Affinity Capture-MS Homo sapiens
31 STX6 10228
Proximity Label-MS Homo sapiens
32 NSFL1C 55968
Co-fractionation Homo sapiens
33 RAB35 11021
Proximity Label-MS Homo sapiens
34 NPAS1  
Affinity Capture-MS Homo sapiens
35 EBAG9 9166
Proximity Label-MS Homo sapiens
36 PTH1R  
Affinity Capture-MS Homo sapiens
37 GPR17 2840
Affinity Capture-MS Homo sapiens
38 MARCKS 4082
Proximity Label-MS Homo sapiens
39 KIF14 9928
Affinity Capture-MS Homo sapiens
40 FAS 355
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
41 NUP155 9631
Proximity Label-MS Homo sapiens
42 PXMP2  
Proximity Label-MS Homo sapiens
43 CD70 970
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
44 KLRC4  
Affinity Capture-MS Homo sapiens
45 PLBD1 79887
Affinity Capture-MS Homo sapiens
46 EMD 2010
Proximity Label-MS Homo sapiens
47 C9orf78 51759
Affinity Capture-MS Homo sapiens
48 ARRDC3 57561
Affinity Capture-MS Homo sapiens
49 SLC5A6 8884
Affinity Capture-MS Homo sapiens
50 CXADR 1525
Proximity Label-MS Homo sapiens
51 SLC39A9 55334
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
52 MCAM 4162
Proximity Label-MS Homo sapiens
53 PRPS2 5634
Affinity Capture-MS Homo sapiens
54 RAB4A 5867
Proximity Label-MS Homo sapiens
55 GALNT3 2591
Affinity Capture-MS Homo sapiens
56 CDH1 999
Proximity Label-MS Homo sapiens
57 VCP 7415
Affinity Capture-MS Homo sapiens
58 NTRK1 4914
Affinity Capture-MS Homo sapiens
59 GPR182  
Affinity Capture-MS Homo sapiens
60 PPARD  
Affinity Capture-MS Homo sapiens
61 TRIM11  
Affinity Capture-MS Homo sapiens
62 ARL13B 200894
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
63 ELOVL5 60481
Proximity Label-MS Homo sapiens
64 SLC2A9  
Affinity Capture-MS Homo sapiens
65 UBXN6 80700
Affinity Capture-MS Homo sapiens
66 USP32 84669
Affinity Capture-MS Homo sapiens
67 PTGIR  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
68 PSG11  
Affinity Capture-MS Homo sapiens
69 ZBED6CL  
Affinity Capture-MS Homo sapiens
70 DCTN3 11258
Affinity Capture-MS Homo sapiens
71 SLC22A6 9356
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
72 APLNR  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
73 MIF4GD 57409
Co-fractionation Homo sapiens
74 HTRA2 27429
Protein-peptide Homo sapiens
75 RAB5A 5868
Proximity Label-MS Homo sapiens
76 GGH 8836
Affinity Capture-MS Homo sapiens
77 LAMP1 3916
Proximity Label-MS Homo sapiens
78 PTH2R  
Affinity Capture-MS Homo sapiens
79 Bmpr1a  
Affinity Capture-MS Mus musculus
80 CMKLR1 1240
Affinity Capture-MS Homo sapiens
81 ASB6 140459
Affinity Capture-MS Homo sapiens
82 HSD3B7 80270
Proximity Label-MS Homo sapiens
83 PDE4D  
Affinity Capture-MS Homo sapiens
84 SLCO4C1 353189
Affinity Capture-MS Homo sapiens
85 HTR2C  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
86 AQP3  
Affinity Capture-MS Homo sapiens
87 OPRL1 4987
Affinity Capture-MS Homo sapiens
88 OCIAD1 54940
Affinity Capture-MS Homo sapiens
89 C17orf80 55028
Proximity Label-MS Homo sapiens
90 RPA3 6119
Proximity Label-MS Homo sapiens
91 USP47 55031
Co-fractionation Homo sapiens
92 ARL4D  
Affinity Capture-MS Homo sapiens
93 GPR45  
Affinity Capture-MS Homo sapiens
94 EGFR 1956
Affinity Capture-MS Homo sapiens
95 A4GNT  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
96 RAB9A 9367
Proximity Label-MS Homo sapiens
97 GOLGA1  
Proximity Label-MS Homo sapiens
98 METTL21B  
Affinity Capture-MS Homo sapiens
99 CD244 51744
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
100 PRKY  
Affinity Capture-MS Homo sapiens
101 RNF2  
Affinity Capture-MS Homo sapiens
102 P2RY10  
Affinity Capture-MS Homo sapiens
103 WDR44 54521
Co-fractionation Homo sapiens
104 AVPR2  
Affinity Capture-MS Homo sapiens
105 ATP6V1H 51606
Co-fractionation Homo sapiens
106 GOLGA2 2801
Proximity Label-MS Homo sapiens
107 SLC2A12 154091
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
108 PLEKHA4 57664
Affinity Capture-MS Homo sapiens
109 PHB2 11331
Affinity Capture-MS Homo sapiens
110 GIPC1 10755
Affinity Capture-MS Homo sapiens
111 TMEM9 252839
Affinity Capture-MS Homo sapiens
112 SLC18A1  
Affinity Capture-MS Homo sapiens
113 PHLDA3 23612
Affinity Capture-MS Homo sapiens
114 KCTD14 65987
Affinity Capture-MS Homo sapiens
115 ARF5 381
Proximity Label-MS Homo sapiens
116 CHRM4  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
117 EFNB1 1947
Affinity Capture-MS Homo sapiens
118 MFSD4  
Affinity Capture-MS Homo sapiens
119 ARF4 378
Proximity Label-MS Homo sapiens
120 TMEM108  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
121 GORASP1 64689
Proximity Label-MS Homo sapiens
122 CD80 941
Affinity Capture-MS Homo sapiens
123 GSTM3 2947
Affinity Capture-MS Homo sapiens
124 ERGIC2 51290
Proximity Label-MS Homo sapiens
125 PDXDC2P  
Affinity Capture-MS Homo sapiens
126 RAB2A 5862
Proximity Label-MS Homo sapiens
127 INF2 64423
Affinity Capture-MS Homo sapiens
128 PCDHGA9  
Affinity Capture-MS Homo sapiens
129 RAB7A 7879
Proximity Label-MS Homo sapiens
130 RAB11A 8766
Proximity Label-MS Homo sapiens
131 ARF1 375
Proximity Label-MS Homo sapiens
132 EPHA2 1969
Proximity Label-MS Homo sapiens
133 SERBP1 26135
Affinity Capture-MS Homo sapiens
134 C9orf72  
Affinity Capture-MS Homo sapiens
135 FAM96A  
Affinity Capture-MS Homo sapiens
136 NFKBIB  
Affinity Capture-MS Homo sapiens
137 HS1BP3 64342
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
138 DNAI2  
Affinity Capture-MS Homo sapiens
139 CAV1 857
Proximity Label-MS Homo sapiens
140 FPR2  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
View the network image/svg+xml
 Pathways in which PDXDC1 is involved
No pathways found





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