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PDGFRB (platelet derived growth factor receptor beta)

Gene
Entrez ID Entrez Gene ID - the GENE ID in NCBI Gene database.
5159
Gene nameGene Name - the full gene name approved by the HGNC.
Platelet derived growth factor receptor beta
Gene symbolGene Symbol - the official gene symbol approved by the HGNC, which is a short abbreviated form of the gene name.
PDGFRB
SynonymsGene synonyms aliases
CD140B, IBGC4, IMF1, JTK12, KOGS, OPDKD, PDGFR, PDGFR-1, PDGFR1, PENTT
ChromosomeChromosome number
5
Chromosome locationChromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.
5q32
SummarySummary of gene provided in NCBI Entrez Gene.
The protein encoded by this gene is a cell surface tyrosine kinase receptor for members of the platelet-derived growth factor family. These growth factors are mitogens for cells of mesenchymal origin. The identity of the growth factor bound to a receptor
SNPsSNP information provided by dbSNP.
SNP ID Visualize variation Clinical significance Consequence
rs138008832 G>A,T Likely-pathogenic Missense variant, coding sequence variant, genic downstream transcript variant
rs144050370 G>T Pathogenic Missense variant, coding sequence variant, genic downstream transcript variant
rs367543286 G>A Pathogenic Missense variant, coding sequence variant, genic downstream transcript variant
rs397509381 A>G Pathogenic Genic downstream transcript variant, coding sequence variant, missense variant
rs397509382 G>A Pathogenic Genic downstream transcript variant, coding sequence variant, missense variant
miRNAmiRNA information provided by mirtarbase database.
miRTarBase ID miRNA Experiments Reference
MIRT000770 hsa-miR-224-5p Microarray, Northern blot 16331254
MIRT053383 hsa-miR-34a-5p In situ hybridization, Luciferase reporter assay, qRT-PCR, Western blot 23805317
MIRT053383 hsa-miR-34a-5p In situ hybridization, Luciferase reporter assay, qRT-PCR, Western blot 23805317
MIRT053384 hsa-miR-34c-5p In situ hybridization, Luciferase reporter assay, qRT-PCR, Western blot 23805317
MIRT053384 hsa-miR-34c-5p In situ hybridization, Luciferase reporter assay, qRT-PCR, Western blot 23805317
Transcription factors
Transcription factor Regulation Reference
TP53 Activation 18697203
ZNF24 Repression 20510677
Gene ontology (GO)Gene ontology information of associated ontologies with gene provided by GO database.
GO ID Ontology Definition Evidence Reference
GO:0000165 Process MAPK cascade TAS
GO:0004713 Function Protein tyrosine kinase activity IDA 1653029
GO:0004714 Function Transmembrane receptor protein tyrosine kinase activity IBA 21873635
GO:0004992 Function Platelet activating factor receptor activity TAS 2536956
GO:0005017 Function Platelet-derived growth factor-activated receptor activity TAS 2536956
Other IDsOther ids provides unique ids of gene in databases such as OMIM, HGNC, ENSEMBLE.
MIM
HGNC
e!Ensembl
Protein
UniProt ID P09619
Protein name 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 r
Protein function Tyrosine-protein kinase that acts as a 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, di
PDB 1GQ5 , 1H9O , 1SHA , 2IUI , 2L6W , 2PLD , 2PLE , 3MJG
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00047 ig
37 114
Immunoglobulin domain
Domain
PF13927 Ig_3
213 295
Domain
PF07679 I-set
327 413
Immunoglobulin I-set domain
Domain
PF07714 PK_Tyr_Ser-Thr
600 958
Protein tyrosine and serine/threonine kinase
Domain
Sequence
MRLPGAMPALALKGELLLLSLLLLLEPQISQGLVVTPPGPELVLNVSSTFVLTCSGSAPV
VWERMSQEPPQEMAKAQDGTFSSVLTLTNLTGLDTGEYFCTHNDSRGLETDERK
RLYIFV
PDPTVGFLPNDAEELFIFLTEITEITIPCRVTDPQLVVTLHEKKGDVALPVPYDHQRGFS
GIFEDRSYICKTTIGDREVDSDAYYVYRLQVSSINVSVNAVQTVVRQGENITLMCIVIGN
EVVNFEWTYPRKESGRLVEPVTDFLLDMPYHIRSILHIPSAELEDSGTYTCNVTE
SVNDH
QDEKAINITVVESGYVRLLGEVGTLQFAELHRSRTLQVVFEAYPPPTVLWFKDNRTLGDS
SAGEIALSTRNVSETRYVSELTLVRVKVAEAGHYTMRAFHEDAEVQLSFQLQI
NVPVRVL
ELSESHPDSGEQTVRCRGRGMPQPNIIWSACRDLKRCPRELPPTLLGNSSEEESQLETNV
TYWEEEQEFEVVSTLRLQHVDRPLSVRCTLRNAVGQDTQEVIVVPHSLPFKVVVISAILA
LVVLTIISLIILIMLWQKKPRYEIRWKVIESVSSDGHEYIYVDPMQLPYDSTWELPRDQL
VLGRTLGSGAFGQVVEATAHGLSHSQATMKVAVKMLKSTARSSEKQALMSELKIMSHLGP
HLNVVNLLGACTKGGPIYIITEYCRYGDLVDYLHRNKHTFLQHHSDKRRPPSAELYSNAL
PVGLPLPSHVSLTGESDGGYMDMSKDESVDYVPMLDMKGDVKYADIESSNYMAPYDNYVP
SAPERTCRATLINESPVLSYMDLVGFSYQVANGMEFLASKNCVHRDLAARNVLICEGKLV
KICDFGLARDIMRDSNYISKGSTFLPLKWMAPESIFNSLYTTLSDVWSFGILLWEIFTLG
GTPYPELPMNEQFYNAIKRGYRMAQPAHASDEIYEIMQKCWEEKFEIRPPFSQLVLLL
ER
LLGEGYKKKYQQVDEEFLRSDHPAILRSQARLPGFHGLRSPLDTSSVLYTAVQPNEGDND
YIIPLPDPKPEVADEGPLEGSPSLASSTLNEVNTSSTISCDSPLEPQDEPEPEPQLELQV
EPEPELEQLPDSGCPAPRAEAEDSFL
Sequence length 1106
Interactions View interactions
PathwaysPathway information has different metabolic/signaling pathways associated with genes. Each record is hyperlinked to a complete information page which also includes links to the KEGG/Reactome pathway database.
 
KEGG
 
Reactome
  EGFR tyrosine kinase inhibitor resistance
MAPK signaling pathway
Ras signaling pathway
Rap1 signaling pathway
Calcium signaling pathway
Phospholipase D signaling pathway
PI3K-Akt signaling pathway
Focal adhesion
Gap junction
JAK-STAT signaling pathway
Regulation of actin cytoskeleton
Human papillomavirus infection
Pathways in cancer
MicroRNAs in cancer
Glioma
Prostate cancer
Melanoma
Central carbon metabolism in cancer
Choline metabolism in cancer
  PIP3 activates AKT signaling
Downstream signal transduction
Signaling by PDGF
Constitutive Signaling by Aberrant PI3K in Cancer
RAF/MAP kinase cascade
PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling
Associated diseases
Causal
Disease name Disease term dbSNP ID References
Aging syndrome Acroosteolysis-keloid-like lesions-premature aging syndrome rs1554108211
Basal ganglia calcification BASAL GANGLIA CALCIFICATION, IDIOPATHIC, 4, Idiopathic basal ganglia calcification 1 rs1586022262, rs387906652, rs387906653, rs397509381, rs367543286, rs398122396, rs398122397, rs397515631, rs397515632, rs398122398, rs397515633, rs398122399, rs786205901, rs786205902, rs786205903, rs786205904, rs398122395, rs1554546830, rs751093906, rs1563452941, rs760451348, rs749427106, rs1563982489, rs1563981743, rs1563981857, rs1563452873, rs1563452322, rs1563453866, rs1563490467, rs1563497714, rs1563498184, rs1563431044, rs1586025869, rs1588003652, rs868530644, rs775762093, rs765483979, rs1601038626, rs1600978441, rs1230941179, rs1383641309, rs781261918, rs751103286, rs1601038704 25292412, 23255827, 24065723, 24796542, 26599395, 26129893
Brachydactyly Brachydactyly rs121908949, rs28937580, rs121909082, rs104894122, rs863223289, rs863223290, rs104894121, rs1587657302, rs863223292, rs74315386, rs74315387, rs28936397, rs753691079, rs121909348, rs121917852, rs121917853, rs121917854, rs121917855, rs121917859, rs121917861, rs267606873, rs267606872, rs267606985, rs267606986, rs267606987, rs267606988, rs28933082, rs397514519, rs869025613, rs869025614, rs886039878, rs1553540620, rs1057518333, rs1948841937, rs1948868228, rs1948842030, rs1948842142
Chondrocalcinosis Calcium pyrophosphate deposition disease rs121908405, rs28939080, rs121908407, rs2126640512, rs121908408, rs121908409, rs121908410
Unknown
Disease name Disease term dbSNP ID References
Acrosteolysis Acro-Osteolysis
Basal ganglia diseases Basal Ganglia Diseases 25938945
Benign neoplasm of nervous system Benign neoplasm of central nervous system
Bilateral striopallidodentate calcinosis Bilateral striopallidodentate calcinosis

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