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    PDGFRB platelet derived growth factor receptor beta [ Homo sapiens (human) ]

    Gene ID: 5159, updated on 18-Jan-2025

    Summary

    Official Symbol
    PDGFRBprovided by HGNC
    Official Full Name
    platelet derived growth factor receptor betaprovided by HGNC
    Primary source
    HGNC:HGNC:8804
    See related
    Ensembl:ENSG00000113721 MIM:173410; AllianceGenome:HGNC:8804
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    IMF1; KOGS; IBGC4; JTK12; PDGFR; PENTT; CD140B; PDGFR1; PDGFR-1
    Summary
    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 monomer determines whether the functional receptor is a homodimer (PDGFB or PDGFD) or a heterodimer (PDGFA and PDGFB). This gene is essential for normal development of the cardiovascular system and aids in rearrangement of the actin cytoskeleton. This gene is flanked on chromosome 5 by the genes for granulocyte-macrophage colony-stimulating factor and macrophage-colony stimulating factor receptor; all three genes may be implicated in the 5-q syndrome. A translocation between chromosomes 5 and 12, that fuses this gene to that of the ETV6 gene, results in chronic myeloproliferative disorder with eosinophilia. [provided by RefSeq, Aug 2017]
    Expression
    Broad expression in gall bladder (RPKM 79.5), placenta (RPKM 61.0) and 21 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See PDGFRB in Genome Data Viewer
    Location:
    5q32
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (150113839..150155845, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (150650431..150692448, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (149493402..149535408, complement)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene HMG-box containing 3 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23395 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23396 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:149439174-149439376 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:149444398-149444573 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23397 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:149447500-149448210 Neighboring gene colony stimulating factor 1 receptor Neighboring gene RORalpha allelically-responsive CSF1R enhancer Neighboring gene CSF1R promoter/intronic regulatory region Neighboring gene LTR-CSF1R promoter Neighboring gene Sharpr-MPRA regulatory region 12786 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:149490949-149491461 Neighboring gene ribosomal protein L7 pseudogene 1 Neighboring gene CSF1R promoter E1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:149497723-149498310 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:149499971-149500878 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:149507353-149507854 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:149509491-149510101 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_82275 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:149515109-149515620 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:149515621-149516130 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:149516131-149516642 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:149517153-149517664 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:149526270-149526796 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:149532128-149532648 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:149532649-149533168 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:149537326-149538114 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23399 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:149540489-149541398 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr5:149565453-149566393 Neighboring gene caudal type homeobox 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:149585404-149586030 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:149587985-149589184 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:149589159-149589702 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:149590543-149591114 Neighboring gene solute carrier family 6 member 7

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat HIV-1 Tat and cocaine treatment induces phosphorylation of PDGFR-beta at position Y934 without the requirement of PDGF binding in human pulmonary arterial smooth muscle cells PubMed
    tat HIV-1 Tat upregulates the expression of platelet-derived growth factor subunit B homodimer through activation of the PDGFR-B/MEK/NF-kappaB pathway in human brain microvascular pericytes PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by GOA

    Items 1 - 25 of 36
    Function Evidence Code Pubs
    enables ATP binding  
    enables GPI-linked ephrin receptor activity  
    enables GTPase activator activity PubMed 
    enables boss receptor activity  
    enables brain-derived neurotrophic factor receptor activity  
    enables enzyme binding PubMed 
    enables epidermal growth factor receptor activity  
    enables fibroblast growth factor receptor activity  
    enables hepatocyte growth factor receptor activity  
    enables histone H2AXY142 kinase activity  
    enables histone H3Y41 kinase activity  
    enables insulin receptor activity  
    enables insulin-like growth factor receptor activity  
    enables macrophage colony-stimulating factor receptor activity  
    enables phospholipase C activator activity PubMed 
    enables placental growth factor receptor activity  
    enables platelet activating factor receptor activity PubMed 
    enables platelet-derived growth factor alpha-receptor activity  
    enables platelet-derived growth factor beta-receptor activity  
    enables platelet-derived growth factor beta-receptor activity PubMed 
    enables platelet-derived growth factor beta-receptor activity PubMed 
    enables platelet-derived growth factor binding  
    enables platelet-derived growth factor binding PubMed 
    enables platelet-derived growth factor binding PubMed 
    enables platelet-derived growth factor receptor activity PubMed 
    enables platelet-derived growth factor receptor binding PubMed 
    enables protein binding PubMed 
    enables protein kinase activity PubMed 
    enables protein kinase binding PubMed 
    enables protein tyrosine kinase activity PubMed 
    enables protein tyrosine kinase collagen receptor activity  
    enables signaling receptor binding PubMed 
    enables stem cell factor receptor activity  
    enables transmembrane-ephrin receptor activity  
    enables vascular endothelial growth factor binding PubMed 
    enables vascular endothelial growth factor receptor activity  
    Items 1 - 25 of 36
    Items 1 - 25 of 55
    Process Evidence Code Pubs
    involved_in G protein-coupled receptor signaling pathway  
    involved_in Kit signaling pathway  
    involved_in angiogenesis  
    involved_in aorta morphogenesis  
    involved_in brain-derived neurotrophic factor receptor signaling pathway  
    involved_in cardiac myofibril assembly  
    involved_in cell chemotaxis  
    involved_in cell chemotaxis PubMed 
    involved_in cell migration involved in coronary angiogenesis  
    involved_in cell migration involved in vasculogenesis  
    involved_in cell surface receptor protein tyrosine kinase signaling pathway  
    involved_in cellular response to platelet-derived growth factor stimulus  
    involved_in chromatin remodeling  
    involved_in collagen-activated tyrosine kinase receptor signaling pathway  
    involved_in ephrin receptor signaling pathway  
    involved_in epidermal growth factor receptor signaling pathway  
    involved_in fibroblast growth factor receptor signaling pathway  
    involved_in hepatocyte growth factor receptor signaling pathway  
    involved_in insulin receptor signaling pathway  
    involved_in insulin-like growth factor receptor signaling pathway  
    involved_in macrophage colony-stimulating factor signaling pathway  
    involved_in metanephric glomerular capillary formation  
    involved_in metanephric glomerular mesangial cell proliferation involved in metanephros development  
    involved_in multicellular organism development  
    involved_in peptidyl-tyrosine phosphorylation PubMed 
    involved_in platelet-derived growth factor receptor signaling pathway PubMed 
    involved_in platelet-derived growth factor receptor-alpha signaling pathway  
    involved_in platelet-derived growth factor receptor-beta signaling pathway PubMed 
    involved_in positive regulation of DNA biosynthetic process  
    involved_in positive regulation of ERK1 and ERK2 cascade PubMed 
    involved_in positive regulation of ERK1 and ERK2 cascade  
    involved_in positive regulation of MAP kinase activity  
    involved_in positive regulation of calcium ion import  
    involved_in positive regulation of calcium-mediated signaling PubMed 
    involved_in positive regulation of cell migration PubMed 
    involved_in positive regulation of cell migration PubMed 
    involved_in positive regulation of cell population proliferation PubMed 
    involved_in positive regulation of cell proliferation by VEGF-activated platelet derived growth factor receptor signaling pathway PubMed 
    involved_in positive regulation of chemotaxis  
    involved_in positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway  
    involved_in positive regulation of mitotic nuclear division  
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction PubMed 
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  
    involved_in positive regulation of reactive oxygen species metabolic process  
    involved_in positive regulation of smooth muscle cell migration  
    involved_in positive regulation of smooth muscle cell migration PubMed 
    involved_in positive regulation of smooth muscle cell migration  
    involved_in positive regulation of smooth muscle cell proliferation PubMed 
    involved_in positive regulation of smooth muscle cell proliferation  
    involved_in protein autophosphorylation PubMed 
    involved_in regulation of actin cytoskeleton organization  
    involved_in retina vasculature development in camera-type eye  
    involved_in signal transduction PubMed 
    involved_in smooth muscle cell chemotaxis  
    involved_in vascular endothelial growth factor receptor-1 signaling pathway  
    Items 1 - 25 of 55
    Component Evidence Code Pubs
    located_in Golgi apparatus  
    located_in apical plasma membrane  
    located_in cytoplasm  
    located_in cytoplasmic vesicle  
    located_in focal adhesion PubMed 
    located_in intracellular membrane-bounded organelle  
    located_in lysosomal lumen  
    located_in membrane PubMed 
    located_in membrane PubMed 
    located_in nucleus  
    is_active_in plasma membrane  
    located_in plasma membrane PubMed 
    located_in plasma membrane  
    part_of receptor complex  

    General protein information

    Preferred Names
    platelet-derived growth factor receptor beta
    Names
    Activated tyrosine kinase PDGFRB
    CD140 antigen-like family member B
    NDEL1-PDGFRB
    PDGF-R-beta
    PDGFR-beta
    beta-type platelet-derived growth factor receptor
    platelet-derived growth factor receptor 1
    platelet-derived growth factor receptor, beta polypeptide
    NP_001341945.1
    NP_001341946.1
    NP_002600.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_023367.2 RefSeqGene

      Range
      5000..47006
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001355016.2 → NP_001341945.1  platelet-derived growth factor receptor beta isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      AC005895, AC011382
      UniProtKB/TrEMBL
      A8KAM8
      Conserved Domains (5) summary
      cd05107
      Location:498 → 889
      PTKc_PDGFR_beta; Catalytic domain of the Protein Tyrosine Kinase, Platelet Derived Growth Factor Receptor beta
      cd00096
      Location:367 → 375
      Ig; Ig strand B [structural motif]
      cd05859
      Location:250 → 351
      Ig4_PDGFR; Fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR)
      cd05861
      Location:148 → 247
      IgI_PDGFR-alphabeta; Immunoglobulin (Ig)-like domain of platelet-derived growth factor (PDGF) receptors (R), alpha and beta; member of the I-set of IgSF domains
      cl11960
      Location:367 → 455
      Ig; Immunoglobulin domain
    2. NM_001355017.2 → NP_001341946.1  platelet-derived growth factor receptor beta isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) uses an alternate splice junction compared to variant 1. The resulting isoform (3) has a shorter and distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AC005895, AC011382
      UniProtKB/TrEMBL
      A8KAM8
      Conserved Domains (4) summary
      cd05107
      Location:401 → 792
      PTKc_PDGFR_beta; Catalytic domain of the Protein Tyrosine Kinase, Platelet Derived Growth Factor Receptor beta
      cd05859
      Location:153 → 254
      Ig4_PDGFR; Fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR)
      cd05861
      Location:67 → 151
      Ig_PDGFR-alphabeta; Immunoglobulin (Ig)-like domain of platelet-derived growth factor (PDGF) receptors (R), alpha (CD140a), and beta (CD140b)
      cl11960
      Location:264 → 362
      Ig; Immunoglobulin domain
    3. NM_002609.4 → NP_002600.1  platelet-derived growth factor receptor beta isoform 1 precursor

      See identical proteins and their annotated locations for NP_002600.1

      Status: REVIEWED

      Source sequence(s)
      AC005895, AC011382
      Consensus CDS
      CCDS4303.1
      UniProtKB/Swiss-Prot
      B5A957, P09619, Q8N5L4
      UniProtKB/TrEMBL
      A8KAM8
      Related
      ENSP00000261799.4, ENST00000261799.9
      Conserved Domains (8) summary
      cd05107
      Location:562 → 953
      PTKc_PDGFR_beta; Catalytic domain of the Protein Tyrosine Kinase, Platelet Derived Growth Factor Receptor beta
      cd05859
      Location:314 → 415
      Ig4_PDGFR-alpha; Fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha
      cd05861
      Location:228 → 312
      Ig1_PDGFR-alphabeta; Frst immunoglobulin (Ig)-like domain of platelet-derived growth factor (PDGF) receptors (R), alpha (CD140a), and beta (CD140b)
      smart00409
      Location:40 → 110
      IG; Immunoglobulin
      smart00410
      Location:222 → 310
      IG_like; Immunoglobulin like
      pfam00047
      Location:37 → 114
      ig; Immunoglobulin domain
      pfam07714
      Location:600 → 953
      Pkinase_Tyr; Protein tyrosine kinase
      cl11960
      Location:425 → 523
      Ig; Immunoglobulin domain

    RNA

    1. NR_149150.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks most of the exons found in variant 1. This variant is represented as non-coding because it lacks the entire coding region found in variant 1.
      Source sequence(s)
      AC005895

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      150113839..150155845 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      150650431..150692448 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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