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The protein encoded by this gene is a member of the platelet-derived growth factor family. The four members of this family are mitogenic factors for cells of mesenchymal origin and are characterized by a core motif of eight cysteines, seven of which are found in this factor. This gene product only forms homodimers and, therefore, does not dimerize with the other three family members. It differs from alpha and beta members of this family in having an unusual N-terminal domain, the CUB domain. Two splice variants have been identified for this gene. [provided by RefSeq, Jul 2008]
PDGFD (Platelet Derived Growth Factor D) is a Protein Coding gene. Diseases associated with PDGFD include Obstructive Nephropathy and Familiar Ovarian Carcinoma. Among its related pathways are Phospholipase D signaling pathway and Signaling by GPCR. Gene Ontology (GO) annotations related to this gene include growth factor activity and platelet-derived growth factor receptor binding. An important paralog of this gene is PDGFC.
Platelet-derived growth factor receptors (PDGFRs) are catalytic receptors that have intracellular tyrosine kinase activity. They have roles in the regulation of many biological processes including embryonic development, angiogenesis, cell proliferation and differentiation.
GeneHancer (GH) Identifier | GH Type | GH Score |
GH Sources | Gene Association Score | Total Score | TSS distance (kb) | Number of Genes Away | Size (kb) | Transcription Factor Binding Sites |
Gene Targets |
---|---|---|---|---|---|---|---|---|---|---|
GH11J104162 | Promoter/Enhancer | 1.9 | EPDnew Ensembl ENCODE CraniofacialAtlas | 605.1 | +1.0 | 978 | 3.2 | PRDM10 ZNF629 CTCF ZNF692 ZNF7 ZIC2 PATZ1 POLR2A EZH2 ZNF600 | PDGFD CASP12 DDI1 | |
GH11J103958 | Enhancer | 0.9 | Ensembl ENCODE | 11 | +205.1 | 205107 | 1.3 | BACH1 STAT3 RELA TCF12 IKZF2 RCOR1 TRIM22 PKNOX1 ARID3A SP1 | DDI1 PDGFD piR-61514-045 DYNC2H1 | |
GH11J104090 | Enhancer | 0.6 | Ensembl ENCODE | 15.9 | +73.0 | 72972 | 2 | POLR2A PRDM6 SMARCA4 ZNF518A | PDGFD DDI1 | |
GH11J103960 | Enhancer | 0.6 | Ensembl ENCODE | 11 | +203.1 | 203103 | 1.1 | SP1 CEBPB FOS FOSL2 NFE2L2 BCL3 | DDI1 PDGFD piR-61514-045 DYNC2H1 | |
GH11J103700 | Enhancer | 0.7 | FANTOM5 Ensembl ENCODE | 10.3 | +463.3 | 463320 | 1.1 | CEBPB NR3C1 | PDGFD lnc-DYNC2H1-2 LOC105369463 ENSG00000254987 DDI1 DYNC2H1 |
GO ID | Qualified GO term | Evidence | PubMed IDs |
---|---|---|---|
GO:0005161 | platelet-derived growth factor receptor binding | IEA,IBA | 21873635 |
GO:0008083 | growth factor activity | IEA | -- |
GO:0070851 | growth factor receptor binding | IBA | 21873635 |
GO ID | Qualified GO term | Evidence | PubMed IDs |
---|---|---|---|
GO:0000139 | Golgi membrane | TAS | -- |
GO:0005576 | extracellular region | TAS | -- |
GO:0005615 | extracellular space | IBA | 21873635 |
GO:0005788 | endoplasmic reticulum lumen | TAS | -- |
GO:0016020 | membrane | IEA | -- |
SuperPathway | Contained pathways | ||
---|---|---|---|
1 | Apoptotic Pathways in Synovial Fibroblasts |
Cellular Apoptosis Pathway
.85
Mitochondrial Apoptosis
.85
Apoptotic Pathways in Synovial Fibroblasts
.84
p53 Mediated Apoptosis
.84
DHA Signaling
.74
Telomerase Components in Cell Signaling
.72
PPAR Pathway
.66
|
Rac1 Pathway
.65
Glioma Invasiveness
.64
Actin-Based Motility by Rho Family GTPases
.62
ERK5 Signaling
.61
eIF2 Pathway
.60
Rap1 Pathway
.57
Nuclear Receptor Activation by Vitamin-A
.57
|
2 | GPCR Pathway |
Paxillin Interactions
.73
Ras Pathway
.73
GPCR Pathway
.62
Pancreatic Adenocarcinoma
.59
|
Breast Cancer Regulation by Stathmin1
.58
NFAT in Immune Response
.58
Estrogen Pathway
.55
|
3 | ERK Signaling |
ERK Signaling
.61
Rho Family GTPases
.61
MAPK Signaling
.58
|
Molecular Mechanisms of Cancer
.51
ILK Signaling
.49
|
4 | Nanog in Mammalian ESC Pluripotency |
GSK3 Signaling
.62
Nanog in Mammalian ESC Pluripotency
.62
|
14-3-3 Induced Intracellular Signaling
.59
eNOS Signaling
.48
|
5 | CREB Pathway |
CREB Pathway
.68
IP3 Pathway
.68
|
Activation of PKC through GPCR
.63
Intracellular Calcium Signaling
.50
|
GO ID | Qualified GO term | Evidence | PubMed IDs |
---|---|---|---|
GO:0007275 | multicellular organism development | IEA | -- |
GO:0008284 | positive regulation of cell proliferation | IBA | 21873635 |
GO:0014068 | positive regulation of phosphatidylinositol 3-kinase signaling | IBA | 21873635 |
GO:0030335 | positive regulation of cell migration | IBA | 21873635 |
GO:0031954 | positive regulation of protein autophosphorylation | IBA | 21873635 |
Name | Status | Disease Links | Group | Role | Mechanism of Action | Clinical Trials |
---|---|---|---|---|---|---|
Sunitinib | Approved, Investigational | Pharma | inhibitor | VEGFR/PDGFRβ/ KIT/ FLT3/RET/CSF-1R inhibitor, RTK inhibitor, Potent VEGFR, PDGFRbeta and KIT inhibitor, Kinase Inhibitors, Vascular endothelial growth factor (VEGF) and VEGF receptor (VEGFR) inhibitors | 552 | |
CR002 | Investigational | Pharma | Target | 0 | ||
Tandutinib | Investigational | Pharma | Target | Kinase Inhibitors | 0 | |
DMPQ dihydrochloride | Pharma | Potent, selective inhibitor of PDGFRbeta | 0 | |||
Toceranib | Pharma | c-Kit/VEGFR/PDGFR inhibtor, Potent PDGFR and VEGFR inhibitor | 0 |
Name | Synonyms | Role | CAS Number | PubChem IDs | PubMed IDs | |
---|---|---|---|---|---|---|
SU 6668 |
|
252916-29-3 |
|
|
Compound | Action | Cas Number |
---|---|---|
DMPQ dihydrochloride | Potent, selective inhibitor of PDGFRbeta | 1123491-15-5 |
SU 6668 | PDGFR, VEGFR and FGFR inhibitor | 252916-29-3 |
Toceranib | Potent PDGFR and VEGFR inhibitor | 356068-94-5 |
ExUns: | 1 | ^ | 2a | · | 2b | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7a | · | 7b |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
SP1: | |||||||||||||||||
SP2: | - |
This gene was present in the common ancestor of chordates.
Organism | Taxonomy | Gene | Similarity | Type | Details |
---|---|---|---|---|---|
Chimpanzee (Pan troglodytes) |
Mammalia | PDGFD 30 31 |
|
OneToOne | |
Cow (Bos Taurus) |
Mammalia | PDGFD 30 31 |
|
OneToOne | |
Dog (Canis familiaris) |
Mammalia | PDGFD 30 31 |
|
OneToOne | |
Rat (Rattus norvegicus) |
Mammalia | Pdgfd 30 |
|
||
Mouse (Mus musculus) |
Mammalia | Pdgfd 30 17 31 |
|
OneToOne | |
Oppossum (Monodelphis domestica) |
Mammalia | PDGFD 31 |
|
OneToOne | |
Platypus (Ornithorhynchus anatinus) |
Mammalia | PDGFD 31 |
|
OneToOne | |
Chicken (Gallus gallus) |
Aves | PDGFD 30 31 |
|
OneToOne | |
Lizard (Anolis carolinensis) |
Reptilia | PDGFD 31 |
|
OneToOne | |
Tropical Clawed Frog (Silurana tropicalis) |
Amphibia | LOC100492060 30 |
|
||
Zebrafish (Danio rerio) |
Actinopterygii | LOC100535718 30 |
|
||
CABZ01114098.1 31 |
|
OneToOne |
SNP ID | Clinical significance and condition | Chr 11 pos | Variation | AA Info | Type |
---|---|---|---|---|---|
770220 | Benign: not provided | 104,036,945(-) | C/T | SYNONYMOUS_VARIANT,INTRON_VARIANT | |
773252 | Likely Benign: not provided | 104,038,000(-) | G/GA | FRAMESHIFT_VARIANT,INTRON_VARIANT | |
777651 | Benign: not provided | 104,037,356(-) | C/T | SYNONYMOUS_VARIANT,INTRON_VARIANT | |
785380 | Benign: not provided | 104,037,287(-) | C/T | SYNONYMOUS_VARIANT,INTRON_VARIANT | |
786924 | Benign: not provided | 104,037,789(-) | G/A | MISSENSE_VARIANT,INTRON_VARIANT |
Disorder | Aliases | PubMed IDs |
---|---|---|
obstructive nephropathy |
|
|
familiar ovarian carcinoma |
|
|
proliferative glomerulonephritis |
|
|
mesangial proliferative glomerulonephritis |
|
|
brain cancer |
|
|