Gene: PDGFRB

Basic information

Tag Content
Uniprot ID P09619; B5A957; Q8N5L4;
Entrez ID 5159
Genbank protein ID ACF47631.1; AAA60049.1; AAC51675.1; AAA36427.1; AAH32224.1;
Genbank nucleotide ID XM_011537659.1; XM_011537658.1; NM_002609.3;
Ensembl protein ID ENSP00000261799
Ensembl nucleotide ID ENSG00000113721
Gene name Platelet-derived growth factor receptor beta
Gene symbol PDGFRB
Organism Homo sapiens
NCBI taxa ID 9606
Cleft type
Developmental stage
Data sources Homology search
Reference
Functional description Tyrosine-protein kinase that acts as cell-surface receptor for homodimeric PDGFB and PDGFD and for heterodimers formed by PDGFA and PDGFB, and plays an essential role in the regulation of embryonic development, cell proliferation, survival, differentiation, chemotaxis and migration. Plays an essential role in blood vessel development by promoting proliferation, migration and recruitment of pericytes and smooth muscle cells to endothelial cells. Plays a role in the migration of vascular smooth muscle cells and the formation of neointima at vascular injury sites. Required for normal development of the cardiovascular system. Required for normal recruitment of pericytes (mesangial cells) in the kidney glomerulus, and for normal formation of a branched network of capillaries in kidney glomeruli. Promotes rearrangement of the actin cytoskeleton and the formation of membrane ruffles. Binding of its cognate ligands - homodimeric PDGFB, heterodimers formed by PDGFA and PDGFB or homodimeric PDGFD -leads to the activation of several signaling cascades; the response depends on the nature of the bound ligand and is modulated by the formation of heterodimers between PDGFRA and PDGFRB. Phosphorylates PLCG1, PIK3R1, PTPN11, RASA1/GAP, CBL, SHC1 and NCK1. Activation of PLCG1 leads to the production of the cellular signaling molecules diacylglycerol and inositol 1,4,5-trisphosphate, mobilization of cytosolic Ca(2+) and the activation of protein kinase C. Phosphorylation of PIK3R1, the regulatory subunit of phosphatidylinositol 3-kinase, leads to the activation of the AKT1 signaling pathway. Phosphorylation of SHC1, or of the C-terminus of PTPN11, creates a binding site for GRB2, resulting in the activation of HRAS, RAF1 and down-stream MAP kinases, including MAPK1/ERK2 and/or MAPK3/ERK1. Promotes phosphorylation and activation of SRC family kinases. Promotes phosphorylation of PDCD6IP/ALIX and STAM. Receptor signaling is down-regulated by protein phosphatases that dephosphorylate the receptor and its down-stream effectors, and by rapid internalization of the activated receptor.
Sequence
MRLPGAMPAL ALKGELLLLS LLLLLEPQIS QGLVVTPPGP ELVLNVSSTF VLTCSGSAPV 60
VWERMSQEPP QEMAKAQDGT FSSVLTLTNL TGLDTGEYFC THNDSRGLET DERKRLYIFV 120
PDPTVGFLPN DAEELFIFLT EITEITIPCR VTDPQLVVTL HEKKGDVALP VPYDHQRGFS 180
GIFEDRSYIC KTTIGDREVD SDAYYVYRLQ VSSINVSVNA VQTVVRQGEN ITLMCIVIGN 240
EVVNFEWTYP RKESGRLVEP VTDFLLDMPY HIRSILHIPS AELEDSGTYT CNVTESVNDH 300
QDEKAINITV VESGYVRLLG EVGTLQFAEL HRSRTLQVVF EAYPPPTVLW FKDNRTLGDS 360
SAGEIALSTR NVSETRYVSE LTLVRVKVAE AGHYTMRAFH EDAEVQLSFQ LQINVPVRVL 420
ELSESHPDSG EQTVRCRGRG MPQPNIIWSA CRDLKRCPRE LPPTLLGNSS EEESQLETNV 480
TYWEEEQEFE VVSTLRLQHV DRPLSVRCTL RNAVGQDTQE VIVVPHSLPF KVVVISAILA 540
LVVLTIISLI ILIMLWQKKP RYEIRWKVIE SVSSDGHEYI YVDPMQLPYD STWELPRDQL 600
VLGRTLGSGA FGQVVEATAH GLSHSQATMK VAVKMLKSTA RSSEKQALMS ELKIMSHLGP 660
HLNVVNLLGA CTKGGPIYII TEYCRYGDLV DYLHRNKHTF LQHHSDKRRP PSAELYSNAL 720
PVGLPLPSHV SLTGESDGGY MDMSKDESVD YVPMLDMKGD VKYADIESSN YMAPYDNYVP 780
SAPERTCRAT LINESPVLSY MDLVGFSYQV ANGMEFLASK NCVHRDLAAR NVLICEGKLV 840
KICDFGLARD IMRDSNYISK GSTFLPLKWM APESIFNSLY TTLSDVWSFG ILLWEIFTLG 900
GTPYPELPMN EQFYNAIKRG YRMAQPAHAS DEIYEIMQKC WEEKFEIRPP FSQLVLLLER 960
LLGEGYKKKY QQVDEEFLRS DHPAILRSQA RLPGFHGLRS PLDTSSVLYT AVQPNEGDND 1020
YIIPLPDPKP EVADEGPLEG SPSLASSTLN EVNTSSTISC DSPLEPQDEP EPEPQLELQV 1080
EPEPELEQLP DSGCPAPRAE AEDSFL 1106

Abbreviation :
CLO : cleft lip only. CPO : cleft palate only. CLP : cleft lip and palate. CL/P : cleft lip with/without cleft palate.
For humans: CL/P, CLO, CPO, and CLP. For mice: CLO, CLP, and CPO.

Gene expression information

Gene expression in different tissues (GTEx V7)

  

Gene expression in different tissues (ENCODE)

  

Protein structural annotations

3D structure in PDB database

Protein disorder information

Orthologous information

Relation Gene symbol Entrez ID UniProt ID Cleft type Developmental stage Species Evidence Details
1:1 orthologPDGFRB527165F1N759Bos taurusPredictionMore>>
1:1 orthologPDGFRBA0A452FZS6Capra hircusPredictionMore>>
1:1 orthologPDGFRB5159P09619Homo sapiensPredictionMore>>
1:1 orthologPdgfrb18596P05622CPOMus musculusPublicationMore>>
1:1 orthologPDGFRBA0A2I3T367Pan troglodytesPredictionMore>>
1:1 orthologA0A480LAB1Sus scrofaPredictionMore>>
1:1 orthologPdgfrb24629Q05030Rattus norvegicusPredictionMore>>

Other genetic variants/mutations

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Disease or phenotype associated information

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Gene Ontology (GO)/biological pathways

GO:Molecular Function

GO ID GO Term Evidence
GO:0004713 protein tyrosine kinase activityIDA
GO:0004714 transmembrane receptor protein tyrosine kinase activityIBA
GO:0004992 platelet activating factor receptor activityTAS
GO:0005017 platelet-derived growth factor-activated receptor activityIBA
GO:0005019 platelet-derived growth factor beta-receptor activityIDA
GO:0005019 platelet-derived growth factor beta-receptor activityIBA
GO:0005019 platelet-derived growth factor beta-receptor activityIMP
GO:0005102 signaling receptor bindingIPI
GO:0005161 platelet-derived growth factor receptor bindingIPI
GO:0005515 protein bindingIPI
GO:0005524 ATP bindingIEA
GO:0019838 growth factor bindingIBA
GO:0019899 enzyme bindingIPI
GO:0019901 protein kinase bindingIPI
GO:0038085 vascular endothelial growth factor bindingIPI
GO:0043548 phosphatidylinositol 3-kinase bindingIEA
GO:0048407 platelet-derived growth factor bindingIBA
GO:0048407 platelet-derived growth factor bindingIPI
GO:0048407 platelet-derived growth factor bindingIDA

GO:Biological Process

GO ID GO Term Evidence
GO:0000165 MAPK cascadeTAS
GO:0001701 in utero embryonic developmentIEA
GO:0001894 tissue homeostasisIEA
GO:0002244 hematopoietic progenitor cell differentiationIBA
GO:0006024 glycosaminoglycan biosynthetic processIEA
GO:0007165 signal transductionIDA
GO:0007169 transmembrane receptor protein tyrosine kinase signaling pathwayIBA
GO:0007186 G protein-coupled receptor signaling pathwayIEA
GO:0007275 multicellular organism developmentIBA
GO:0007568 agingIEA
GO:0008284 positive regulation of cell population proliferationIMP
GO:0008584 male gonad developmentIEA
GO:0010863 positive regulation of phospholipase C activityIDA
GO:0014068 positive regulation of phosphatidylinositol 3-kinase signalingISS
GO:0014911 positive regulation of smooth muscle cell migrationISS
GO:0014911 positive regulation of smooth muscle cell migrationIMP
GO:0014911 positive regulation of smooth muscle cell migrationIBA
GO:0016477 cell migrationIMP
GO:0018108 peptidyl-tyrosine phosphorylationIDA
GO:0030325 adrenal gland developmentIEA
GO:0030335 positive regulation of cell migrationIDA
GO:0032355 response to estradiolIEA
GO:0032516 positive regulation of phosphoprotein phosphatase activityIDA
GO:0032526 response to retinoic acidIEA
GO:0032956 regulation of actin cytoskeleton organizationISS
GO:0032967 positive regulation of collagen biosynthetic processIEA
GO:0033674 positive regulation of kinase activityIBA
GO:0034405 response to fluid shear stressIEA
GO:0035025 positive regulation of Rho protein signal transductionIEA
GO:0035441 cell migration involved in vasculogenesisISS
GO:0035789 metanephric mesenchymal cell migrationIEA
GO:0035791 platelet-derived growth factor receptor-beta signaling pathwayIMP
GO:0035793 positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathwayISS
GO:0035909 aorta morphogenesisISS
GO:0036120 cellular response to platelet-derived growth factor stimulusIEA
GO:0038091 positive regulation of cell proliferation by VEGF-activated platelet derived growth factor receptor signaling pathwayIDA
GO:0042060 wound healingIEA
GO:0043065 positive regulation of apoptotic processIEA
GO:0043066 negative regulation of apoptotic processIEA
GO:0043406 positive regulation of MAP kinase activityISS
GO:0043552 positive regulation of phosphatidylinositol 3-kinase activityIDA
GO:0043627 response to estrogenIEA
GO:0045840 positive regulation of mitotic nuclear divisionISS
GO:0046488 phosphatidylinositol metabolic processIMP
GO:0046777 protein autophosphorylationIDA
GO:0048008 platelet-derived growth factor receptor signaling pathwayIDA
GO:0048015 phosphatidylinositol-mediated signalingIMP
GO:0048146 positive regulation of fibroblast proliferationIEA
GO:0048568 embryonic organ developmentIEA
GO:0048661 positive regulation of smooth muscle cell proliferationISS
GO:0048661 positive regulation of smooth muscle cell proliferationIMP
GO:0048705 skeletal system morphogenesisIEA
GO:0048745 smooth muscle tissue developmentIEA
GO:0048839 inner ear developmentIEA
GO:0050730 regulation of peptidyl-tyrosine phosphorylationIEA
GO:0050921 positive regulation of chemotaxisISS
GO:0051897 positive regulation of protein kinase B signalingTAS
GO:0055003 cardiac myofibril assemblyISS
GO:0055093 response to hyperoxiaIEA
GO:0060326 cell chemotaxisIDA
GO:0060437 lung growthIEA
GO:0060981 cell migration involved in coronary angiogenesisISS
GO:0061298 retina vasculature development in camera-type eyeISS
GO:0070301 cellular response to hydrogen peroxideIEA
GO:0070374 positive regulation of ERK1 and ERK2 cascadeISS
GO:0070374 positive regulation of ERK1 and ERK2 cascadeIMP
GO:0071670 smooth muscle cell chemotaxisISS
GO:0072075 metanephric mesenchyme developmentIEA
GO:0072262 metanephric glomerular mesangial cell proliferation involved in metanephros developmentISS
GO:0072277 metanephric glomerular capillary formationISS
GO:0072278 metanephric comma-shaped body morphogenesisIEA
GO:0072284 metanephric S-shaped body morphogenesisIEA
GO:0090280 positive regulation of calcium ion importISS
GO:0106096 response to ceramideIEA
GO:2000379 positive regulation of reactive oxygen species metabolic processISS
GO:2000491 positive regulation of hepatic stellate cell activationIEA
GO:2000573 positive regulation of DNA biosynthetic processISS

GO:Cellular Component

GO ID GO Term Evidence
GO:0005634 nucleusISS
GO:0005737 cytoplasmISS
GO:0005794 Golgi apparatusIDA
GO:0005886 plasma membraneTAS
GO:0005887 integral component of plasma membraneIBA
GO:0005925 focal adhesionHDA
GO:0009986 cell surfaceIEA
GO:0016020 membraneIDA
GO:0016020 membraneHDA
GO:0016324 apical plasma membraneISS
GO:0031226 intrinsic component of plasma membraneIDA
GO:0031410 cytoplasmic vesicleIEA
GO:0043202 lysosomal lumenIEA
GO:0043231 intracellular membrane-bounded organelleIDA
GO:0043235 receptor complexIBA

Reactome Pathway

Reactome ID Reactome Term Evidence
R-HSA-1257604 PIP3 activates AKT signalingTAS
R-HSA-1280215 Cytokine Signaling in Immune systemTAS
R-HSA-162582 Signal TransductionTAS
R-HSA-1643685 DiseaseTAS
R-HSA-168256 Immune SystemTAS
R-HSA-186763 Downstream signal transductionTAS
R-HSA-186797 Signaling by PDGFTAS
R-HSA-199418 Negative regulation of the PI3K/AKT networkTAS
R-HSA-2219528 PI3K/AKT Signaling in CancerTAS
R-HSA-2219530 Constitutive Signaling by Aberrant PI3K in CancerTAS
R-HSA-5663202 Diseases of signal transductionTAS
R-HSA-5673001 RAF/MAP kinase cascadeTAS
R-HSA-5683057 MAPK family signaling cascadesTAS
R-HSA-5684996 MAPK1/MAPK3 signalingTAS
R-HSA-6811558 PI5P, PP2A and IER3 Regulate PI3K/AKT SignalingTAS
R-HSA-9006925 Intracellular signaling by second messengersTAS
R-HSA-9006934 Signaling by Receptor Tyrosine KinasesTAS
R-HSA-9607240 FLT3 SignalingTAS

Drugs and compounds information

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Functional annotations

Keywords

Keyword ID Keyword Term
KW-0002 3D-structure
KW-0025 Alternative splicing
KW-0067 ATP-binding
KW-1003 Cell membrane
KW-0145 Chemotaxis
KW-0160 Chromosomal rearrangement
KW-0968 Cytoplasmic vesicle
KW-0217 Developmental protein
KW-0903 Direct protein sequencing
KW-0225 Disease mutation
KW-1015 Disulfide bond
KW-0325 Glycoprotein
KW-0393 Immunoglobulin domain
KW-0418 Kinase
KW-0458 Lysosome
KW-0472 Membrane
KW-0547 Nucleotide-binding
KW-0597 Phosphoprotein
KW-0621 Polymorphism
KW-0656 Proto-oncogene
KW-0675 Receptor
KW-1185 Reference proteome
KW-0677 Repeat
KW-0732 Signal
KW-0808 Transferase
KW-0812 Transmembrane
KW-1133 Transmembrane helix
KW-0829 Tyrosine-protein kinase
KW-0832 Ubl conjugation

Interpro

InterPro ID InterPro Term
IPR007110 Ig-like_dom
IPR036179 Ig-like_dom_sf
IPR013783 Ig-like_fold
IPR013098 Ig_I-set
IPR003599 Ig_sub
IPR003598 Ig_sub2
IPR013151 Immunoglobulin
IPR011009 Kinase-like_dom_sf
IPR027288 PGFRB
IPR000719 Prot_kinase_dom
IPR017441 Protein_kinase_ATP_BS
IPR001245 Ser-Thr/Tyr_kinase_cat_dom
IPR008266 Tyr_kinase_AS
IPR020635 Tyr_kinase_cat_dom
IPR001824 Tyr_kinase_rcpt_3_CS

PROSITE

PROSITE ID PROSITE Term
PS50835 IG_LIKE
PS00107 PROTEIN_KINASE_ATP
PS50011 PROTEIN_KINASE_DOM
PS00109 PROTEIN_KINASE_TYR
PS00240 RECEPTOR_TYR_KIN_III

Pfam

Pfam ID Pfam Term
PF07679 I-set
PF00047 ig
PF07714 Pkinase_Tyr

Protein-protein interaction

Protein-miRNA interaction