EV MemProt Atlas

Basic Information

Protein Names

Platelet-derived growth factor receptor beta (PDGF-R-beta) (PDGFR-beta) (EC 2.7.10.1) (Beta platelet-derived growth factor receptor) (Beta-type platelet-derived growth factor receptor) (CD140 antigen-like family member B) (Platelet-derived growth factor receptor 1) (PDGFR-1) (CD antigen CD140b)

Protein Class

Cancer-related genesCD markersDisease related genesEnzymesFDA approved drug targetsHuman disease related genesPlasma proteinsPredicted intracellular proteinsPredicted membrane proteinsRAS pathway related proteinsTransporters

Protein Function

Human disease related genes:Cancers:Cancers of eye, brain, and central nervous system
Predicted intracellular proteins
ENZYME proteins:Transferases
Human disease related genes:Nervous system diseases:Neurodegenerative diseases
CD markers
RAS pathway related proteins
Enzymes
Cancer-related genes:Candidate cancer biomarkers
Human disease related genes:Skin diseases:Skin and soft tissue diseases
Transporters:Accessory Factors Involved in Transport
Kinases:Tyr protein kinases
Disease related genes
FDA approved drug targets:Small molecule drugs
FDA approved drug targets:Biotech drugs

Transmembrane

533..553; Helical

Transmembrane Count

1

Ensembl

ENSG00000113721

Entrez Gene Symbol

PDGFRB

Gene Synonym

CD140bJTK12PDGFRPDGFR1

Gene Description

Platelet derived growth factor receptor beta

Chromosome

5

Position

150113839-150155872

Frequency

1

EVMP Score

0.25

Fluorescence & Localization

Cell SpecificPodocytes

Function & Pathway

Protein Function

Human disease related genes:Cancers:Cancers of eye, brain, and central nervous system
Predicted intracellular proteins
ENZYME proteins:Transferases
Human disease related genes:Nervous system diseases:Neurodegenerative diseases
CD markers
RAS pathway related proteins
Enzymes
Cancer-related genes:Candidate cancer biomarkers
Human disease related genes:Skin diseases:Skin and soft tissue diseases
Transporters:Accessory Factors Involved in Transport
Kinases:Tyr protein kinases
Disease related genes
FDA approved drug targets:Small molecule drugs
FDA approved drug targets:Biotech drugs

Cellular Component

Molecular Function

Biological Process

Reactome

Canonical Pathways

M226 Pid vegfr1 pathway
M193 Pid nephrin neph1 pathway

Mediation Categories

Adhesion and uptake mediationClinical-translation mediationFusion and delivery mediationImmune mediationMetabolism mediationReceptor-signaling mediation

Relations & Evidence

Enzyme-Mediated Modification

88 records.

Substrate Gene Symbol	Enzyme Gene Symbol	Enzyme UniProt ID	Residue Type	Residue Offset	Modification	Database	References
PDGFRB	GRK2	P25098	S	1,104	phosphorylation	phosphoELM_MIMPPhosphoSite_MIMPMIMPKEAphosphoELMPhosphoSite	phosphoELM:15271984 KEA:15271984
PDGFRB	PTPN1	P18031	Y	751	dephosphorylation	SIGNORDEPOD	DEPOD:9355745 SIGNOR:7545675 SIGNOR:18567737 DEPOD:7693671 DEPOD:7545675
PDGFRB	PTPN1	P18031	Y	1,021	dephosphorylation	SIGNORDEPOD	DEPOD:9355745 SIGNOR:7545675 SIGNOR:18567737 DEPOD:7693671 DEPOD:7545675
PDGFRB	PTPN1	P18031	Y	1,009	dephosphorylation	SIGNORDEPOD	DEPOD:9355745 SIGNOR:7545675 SIGNOR:18567737 DEPOD:7693671 DEPOD:7545675
PDGFRB	PTPN1	P18031	Y	740	dephosphorylation	SIGNORDEPOD	DEPOD:9355745 DEPOD:7693671 SIGNOR:7545675 DEPOD:7545675
PDGFRB	PTPN1	P18031	Y	771	dephosphorylation	HPRDSIGNORDEPOD	DEPOD:9355745 SIGNOR:7545675 SIGNOR:18567737 DEPOD:7693671 DEPOD:7545675 HPRD:7545675
PDGFRB	PTPN1	P18031	Y	716	dephosphorylation	SIGNOR	SIGNOR:18567737
PDGFRB	PTPN1	P18031	Y	716	phosphorylation	NCI-PID_ProtMapperSIGNOR_ProtMapperProtMapper	ProtMapper:18567737 ProtMapper:12424235
PDGFRB	PTPN1	P18031	Y	1,021	phosphorylation	NCI-PID_ProtMapperSIGNOR_ProtMapperKEAProtMapper	KEA:7876130 ProtMapper:18567737 ProtMapper:7545675 ProtMapper:12424235
PDGFRB	PTPN1	P18031	Y	581	phosphorylation	NCI-PID_ProtMapperProtMapper	ProtMapper:12424235

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Ligand-Receptor Signaling

67 records.

Category	Parent	Database	Transmitter	Receiver	Secreted	Plasma Membrane (Transmembrane)	Plasma Membrane (Peripheral)
kinase	receptor	Almen2009	No	Yes	No	Yes	No
pdgf	receptor	Almen2009	No	Yes	No	Yes	No
growth_factor	receptor	Baccin2019	No	Yes	No	Yes	No
receptor_tyrosine_kinases_rtk	receptor	HPMR	No	Yes	No	Yes	No
vegf_pdgf	receptor	HPMR	No	Yes	No	Yes	No
kinase	receptor	Surfaceome	No	Yes	No	Yes	No
pdgfr	receptor	Surfaceome	No	Yes	No	Yes	No
cytokine	receptor	ICELLNET	No	Yes	No	Yes	No
cytokine_rtk	receptor	ICELLNET	No	Yes	No	Yes	No
receptor	receptor	OmniPath	No	Yes	No	Yes	No

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Regulatory Interaction Network

38 records.

Source Protein Symbol	Source UniProt ID	Target Protein Symbol	Target UniProt ID	Is Directed	Is Stimulation	Is Inhibition	Database	References
PTN11	Q06124	PGFRB	P09619	Yes	No	Yes	WangSIGNORProtMapperDEPODREACH_ProtMapperHPRDHINTKEABioGRIDKinexus_KEAIntActSIGNOR_ProtMapperLit-BM-17SPIKE_LC	HPRD:8041791 IntAct:8183548 KEA:8290276 HINT:23922991 SPIKE_LC:16189514 Lit-BM-17:23397142 HPRD:12681492 HINT:7691811 HINT:11266449 Lit-BM-17:8119896 IntAct:8538796 HINT:12614164 IntAct:7530043 ProtMapper:7545675 HINT:8119896 HINT:7688466 IntAct:23397142 IntAct:7688466 ProtMapper:30150707 Lit-BM-17:11266449 KEA:14966296 Lit-BM-17:7688466 DEPOD:7545675 HPRD:7691811 KEA:7876130 SIGNOR:7545675 Lit-BM-17:7530043 HINT:8538796 BioGRID:7691811 Lit-BM-17:8538796 IntAct:12614164 Lit-BM-17:12614164 Lit-BM-17:7691811 Lit-BM-17:8183548 HINT:7530043 IntAct:8119896
PGFRB	P09619	NCK1	P16333	Yes	Yes	No	WangPhosphoPointSIGNORELMHPRDSignaLink3SPIKE_LC	SignaLink3:1333047 SignaLink3:23331499 HPRD:9362449 SignaLink3:10026169 SIGNOR:10026169 SPIKE_LC:16189514 ELM:16636066
PGFRB	P09619	GRAP	Q13588	Yes	Yes	No	SignaLink3	SignaLink3:23331499 SignaLink3:7935391
CAV1	Q03135	PGFRB	P09619	Yes	Yes	No	CellinkerSignaLink3	Cellinker:11168929 SignaLink3:10066366 SignaLink3:23331499
PGFRB	P09619	RASA1	P20936	Yes	Yes	No	WangphosphoELM_MIMPPhosphoSite_MIMPMIMPHPRD_MIMPPhosphoPointSIGNORLi2012HPRDHINTPhosphoSite_KEAKEABioGRIDSignaLink3IntActDIPSPIKE_LC	DIP:7486683 IntAct:8382774 HINT:1314164 IntAct:1314164 HPRD:10697503 IntAct:1375321 SignaLink3:11896619 HINT:8344248 HINT:1385407 HINT:8382774 BioGRID:11896619 SPIKE_LC:16713569 SignaLink3:23331499 HINT:1375321 HINT:2157284 SignaLink3:10697503 KEA:1850098 SIGNOR:11896619
PGFRB	P09619	CRK	P46108	Yes	Yes	No	WangPhosphoPointSIGNORELMHPRDSignaLink3SPIKE_LC	ELM:27686861 SIGNOR:19426560 SIGNOR:10733900 SPIKE_LC:16713569 SignaLink3:23331499 HPRD:10733900 SignaLink3:10733900 ELM:10733900
PDGFD	Q9GZP0	PGFRB	P09619	Yes	Yes	No	iTALKICELLNETSignaLink3HPMR_talklrCellChatDBHPRD_LRdbtalklrHPRDRamilowski2015_Baccin2019WangRamilowski2015HPMR_LRdbCellPhoneDBHPRD_talklrBaccin2019CellinkerSTRING_talklrEMBRACECellCallCellTalkDBFantom5_LRdbHPMR_CellinkerconnectomeDB2020LRdb	CellTalkDB:15207811 ICELLNET:11331881 Cellinker:28267575 LRdb:15207811 Cellinker:15207812LRdb:15connectomeDB2020:14514732 connectomeDB2020:15207811 HPRD:14514732Baccin2019:1520781114514730SignaLink3:23331499 SignaLink3:21098708 CellChatDB:15207812 SignaLink3:14514732
PGFRB	P09619	NCK2	O43639	Yes	Yes	No	WangPhosphoPointSIGNORELMHINTHPRDSignaLink3BioGRIDSPIKE_LCLit-BM-17	ELM:16636066 Lit-BM-17:9737977 BioGRID:11027258 Lit-BM-17:11027258 SignaLink3:11027258 HPRD:11027258 SignaLink3:9737977 Lit-BM-17:10026169 HINT:11027258 SPIKE_LC:16713569 SignaLink3:23331499 SignaLink3:10026169 SIGNOR:10026169 HINT:9737977
PDGFB	P01127	PGFRB	P09619	Yes	Yes	No	iTALKKEGG-MEDICUSICELLNETSIGNORProtMapperHINTUniProt_LRdbDIPLit-BM-17HPMR_talklrHPMRCellChatDBHPRD_LRdbDLRP_CellinkertalklrHPRDIntActDLRP_talklrWangRamilowski2015HPMR_LRdbCellPhoneDBHPRD_talklrCellinkerSTRING_talklrCellCallCellTalkDBFantom5_LRdbSparser_ProtMapperHPMR_CellinkerconnectomeDB2020SPIKE_LCLRdb	Cellinker:28267575 ICELLNET:9739761LRdb:119Lit-BM-17:20577048 SIGNOR:11331882 connectomeDB2020:2850496 Lit-BM-17:17981115 HINT:11297552 HINT:20577048 Lit-BM-17:7679113 CellChatDB:15207812 DIP:20534510 IntAct:20534510 IntAct:11297552 ProtMapper:30150707 HINT:17981115 Lit-BM-17:11297552 Cellinker:15207812 LRdb:2850496 HPRD:11903042 Lit-BM-17:10806482 DIP:11297552 HINT:7679113 IntAct:10806482 HPMR:2850496 ICELLNET:15207811 HINT:20534510 IntAct:17981115 HINT:10806482 connectomeDB2020:11903042 IntAct:7679113 CellTalkDB:2850496 SPIKE_LC:16189514
PTN1	P18031	PGFRB	P09619	Yes	No	Yes	DOMINOWangNCI-PID_ProtMapperSIGNORProtMapperDEPODHPRDHINTKEAKinexus_KEAIntActSIGNOR_ProtMapperHPRD-phosSPIKE_LC	HPRD-phos:7545675 DEPOD:7693671 KEA:8290276 SPIKE_LC:9355745 IntAct:19167335 ProtMapper:18567737 SIGNOR:18567737 ProtMapper:7545675 HINT:9355745 DEPOD:9355745 ProtMapper:12424235 IntAct:9355745 KEA:14966296 DEPOD:7545675 KEA:7876130 SIGNOR:7545675 DOMINO:9355745 IntAct:12614164 HPRD:7545675

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Protein Complex Composition

6 records.

Component Name	Component Gene Symbols	Component UniProt ID	Stoichiometry	Database	Database IDs	References
PDGF receptor beta - PDGF-AB complex	PDGFA PDGFB PDGFRB	P01127 P04085 P09619	1:1:1	ComplexPortal	intact:EBI-9083810	14755292 15207811
PDGF receptor beta - PDGF-DD complex	PDGFD PDGFRB	P09619 Q9GZP0	1:1	ComplexPortal	intact:EBI-9085280	11331882 14755292 15207811
PDGFB-PDGFRB complex	PDGFB PDGFRB	P01127 P09619	2:2	CORUMComplexPortalPDB	intact:EBI-9080507PDB:3mjgCORUM:6413	7679113 14755292 15207811
Sh3kbp1-Cblb-Pdgfrb complex	CBLB PDGFRB SH3KBP1	P09619 Q13191 Q96B97	1:1:1	Compleat	Compleat:HC3152	12177062
	PDGFRB	P09619	2	PDB	PDB:2l6w
	PDGFRB PIK3R1	P09619 P27986	2:2	PDB	PDB:2iuiPDB:1h9o

Isolation & Detection Technology

1 record.

EV Isolation Method	Detection Method	Number of References	References
Differential Ultracentrifugation	Mass spectrometry	1	37446098

Sequence, Structure & Domains

Sequences

Length

1,106

Mass

123,968

Sequence

MRLPGAMPALALKGELLLLSLLLLLEPQISQGLVVTPPGPELVLNVSSTFVLTCSGSAPVVWERMSQEPPQEMAKAQDGTFSSVLTLTNLTGLDTGEYFCTHNDSRGLETDERKRLYIFVPDPTVGFLPNDAEELFIFLTEITEITIPCRVTDPQLVVTLHEKKGDVALPVPYDHQRGFSGIFEDRSYICKTTIGDREVDSDAYYVYRLQVSSINVSVNAVQTVVRQGENITLMCIVIGNEVVNFEWTYPRKESGRLVEPVTDFLLDMPYHIRSILHIPSAELEDSGTYTCNVTESVNDHQDEKAINITVVESGYVRLLGEVGTLQFAELHRSRTLQVVFEAYPPPTVLWFKDNRTLGDSSAGEIALSTRNVSETRYVSELTLVRVKVAEAGHYTMRAFHEDAEVQLSFQLQINVPVRVLELSESHPDSGEQTVRCRGRGMPQPNIIWSACRDLKRCPRELPPTLLGNSSEEESQLETNVTYWEEEQEFEVVSTLRLQHVDRPLSVRCTLRNAVGQDTQEVIVVPHSLPFKVVVISAILALVVLTIISLIILIMLWQKKPRYEIRWKVIESVSSDGHEYIYVDPMQLPYDSTWELPRDQLVLGRTLGSGAFGQVVEATAHGLSHSQATMKVAVKMLKSTARSSEKQALMSELKIMSHLGPHLNVVNLLGACTKGGPIYIITEYCRYGDLVDYLHRNKHTFLQHHSDKRRPPSAELYSNALPVGLPLPSHVSLTGESDGGYMDMSKDESVDYVPMLDMKGDVKYADIESSNYMAPYDNYVPSAPERTCRATLINESPVLSYMDLVGFSYQVANGMEFLASKNCVHRDLAARNVLICEGKLVKICDFGLARDIMRDSNYISKGSTFLPLKWMAPESIFNSLYTTLSDVWSFGILLWEIFTLGGTPYPELPMNEQFYNAIKRGYRMAQPAHASDEIYEIMQKCWEEKFEIRPPFSQLVLLLERLLGEGYKKKYQQVDEEFLRSDHPAILRSQARLPGFHGLRSPLDTSSVLYTAVQPNEGDNDYIIPLPDPKPEVADEGPLEGSPSLASSTLNEVNTSSTISCDSPLEPQDEPEPEPQLELQVEPEPELEQLPDSGCPAPRAEAEDSFL

Alternative Products

Event=Alternative splicing; Named isoforms=2; Name=1; IsoId=P09619-1; Sequence=Displayed; Name=2; IsoId=P09619-2; Sequence=VSP_056008, VSP_056009

Alternative Sequence

311..336; VESGYVRLLGEVGTLQFAELHRSRTL -> RAATCGSWERWAHYNLLSCIGAGHCR (in isoform 2); 337..1106; Missing (in isoform 2)

3D Structural Models

Turn

175..177; 267..270; 296..299

Helix

92..94; 132..135; 530..556

Beta Strand

40..43; 50..58; 61..64; 70..75; 81..87; 96..101; 114..119; 136..141; 145..147; 158..164; 178..181; 185..194; 197..200; 204..208; 217..221; 223..226; 231..239; 241..248; 252..255; 261..265; 271..280; 287..295; 300..311

3D Structure

NMR spectroscopy (3); X-ray crystallography (5)

Domain & Motif Annotations

Compositional Bias

1043..1060; Polar residues; 1066..1088; Acidic residues

Domain (FT)

33..120; Ig-like C2-type 1; 129..210; Ig-like C2-type 2; 214..309; Ig-like C2-type 3; 331..403; Ig-like C2-type 4; 416..524; Ig-like C2-type 5; 600..962; Protein kinase

Region

1019..1106; Disordered

Protein Families

Protein kinase superfamily
Tyr protein kinase family
CSF-1/PDGF receptor subfamily

Sequence Similarities

Belongs to the protein kinase superfamily. Tyr protein kinase family. CSF-1/PDGF receptor subfamily.

Clinical Relevance

Disease Involvement

Cancer-related genesDisease variantFDA approved drug targetsProto-oncogene

Related Diseases

Acute diabete complication Alzheimer disease Gram-positive bacterial infection Intracranial injury Liver cancer Lung cancer Multiple myeloma Myelodysplastic syndrome Renal cell carcinoma Solid tumour/cancer Thrombocytopenia

Biomarker

Approved; Phase 1/2; Investigative; Phase 3; Phase 2

Drug Targets

FDA approved drug targets

Antibody

CAB003842 CAB018144 HPA028499

Interaction Protein

ENSG00000100311ENSG00000109062ENSG00000124181ENSG00000145675ENSG00000171862ENSG00000179295

Interaction Count

6

Interaction Dataset

intact_biogrid

Protein symbol PGFRB	UniProt ID P09619	EVMP score 0.25
Frequency 1	Transmembrane count 1	Protein classification Cancer-related genesCD markersDisease related genesEnzymesFDA approved drug targetsHuman disease related genesPlasma proteinsPredicted intracellular proteinsPredicted membrane proteinsRAS pathway related proteinsTransporters

PGFRB