Format

Send to:

Choose Destination

PDGFB platelet derived growth factor subunit B [ Homo sapiens (human) ]

Gene ID: 5155, updated on 1-Jun-2020

Summary

Official Symbol
PDGFBprovided by HGNC
Official Full Name
platelet derived growth factor subunit Bprovided by HGNC
Primary source
HGNC:HGNC:8800
See related
Ensembl:ENSG00000100311 MIM:190040
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
SIS; SSV; IBGC5; PDGF2; c-sis; PDGF-2
Summary
This gene encodes a member of the protein family comprised of both platelet-derived growth factors (PDGF) and vascular endothelial growth factors (VEGF). The encoded preproprotein is proteolytically processed to generate platelet-derived growth factor subunit B, which can homodimerize, or alternatively, heterodimerize with the related platelet-derived growth factor subunit A. These proteins bind and activate PDGF receptor tyrosine kinases, which play a role in a wide range of developmental processes. Mutations in this gene are associated with meningioma. Reciprocal translocations between chromosomes 22 and 17, at sites where this gene and that for collagen type 1, alpha 1 are located, are associated with dermatofibrosarcoma protuberans, a rare skin tumor. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2015]
Expression
Broad expression in placenta (RPKM 18.6), fat (RPKM 12.7) and 23 other tissues See more
Orthologs

Genomic context

See PDGFB in Genome Data Viewer
Location:
22q13.1
Exon count:
8
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 22 NC_000022.11 (39223359..39244982, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (39619685..39640957, complement)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 533 Neighboring gene chromobox 7 Neighboring gene FUN14 domain containing 2 pseudogene 4 Neighboring gene Sharpr-MPRA regulatory region 6675 Neighboring gene small nucleolar RNA, C/D box 83B Neighboring gene ribosomal protein L3

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Human primary pulmonary arterial endothelial cells (HPAEC) are treated with both HIV-1 Tat and gp120 resulting in increased ROS generation and PDGF-B expression PubMed
env PDGFB protects neurons from gp120-induced cytotoxicity through an increased phosphorylation of both GSK-3beta and Bad, the downregulation of the proapoptotic protein Bax, and inhibition of gp120-induced release of mitochondrial cytochrome C PubMed
env Gp120-mediated activation of caspase-3 is significantly reduced in cells pretreated with PDGF-B. PDGF-mediated protection against gp120 involves the phosphoinositide (PI)3-kinase/Akt pathway PubMed
env Pretreatment with PDGFB reduces gp120-associated neurotoxicity and rescues neurite outgrowth PubMed
Tat 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
tat HIV-1-Tat-mediated upregulation of platelet-derived growth factor (PDGF) B chain in astrocytes is regulated by activation of ERK1/2 and JNK MAPK signaling pathways and the downstream transcription factor early growth response 1 (Egr1) PubMed
tat Human primary pulmonary arterial endothelial cells (HPAEC) are treated with both HIV-1 Tat and gp120 resulting in increased ROS generation and PDGF-B expression PubMed
tat PDGF-BB-mediated protection against HIV-1 Tat and morphine-induced neuron apoptosis involves Akt activation PubMed
tat PDGF-BB prevents mitochondria depolarization in human neurons exposed to HIV-1 Tat and morphine PubMed
tat PDGF-BB inhibits NADPH oxidase-mediated reactive oxygen species production induced by HIV-1 Tat and morphine treatment in neuroblastoma cells PubMed
tat PDGF-BB prevents caspase-3 activation induced by HIV-1 Tat and morphine in neuroblastoma cells PubMed
tat PDGF-BB protects neurons against HIV-1 Tat and morphine-induced apoptosis by promoting Bcl2 and inhibiting Bax expression PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ12858

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chemoattractant activity IDA
Inferred from Direct Assay
more info
PubMed 
collagen binding IDA
Inferred from Direct Assay
more info
PubMed 
growth factor activity IDA
Inferred from Direct Assay
more info
PubMed 
growth factor receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
platelet-derived growth factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
platelet-derived growth factor receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
platelet-derived growth factor receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
platelet-derived growth factor receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
platelet-derived growth factor receptor binding NAS
Non-traceable Author Statement
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein heterodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IDA
Inferred from Direct Assay
more info
PubMed 
superoxide-generating NADPH oxidase activator activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
MAPK cascade TAS
Traceable Author Statement
more info
 
activation of protein kinase B activity IDA
Inferred from Direct Assay
more info
PubMed 
activation of protein kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
cell chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
cellular response to growth factor stimulus IDA
Inferred from Direct Assay
more info
PubMed 
cellular response to mycophenolic acid ISS
Inferred from Sequence or Structural Similarity
more info
 
embryonic placenta development ISS
Inferred from Sequence or Structural Similarity
more info
 
extracellular matrix organization TAS
Traceable Author Statement
more info
 
heart development ISS
Inferred from Sequence or Structural Similarity
more info
 
NOT hemopoiesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
interleukin-18-mediated signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
metanephric glomerular mesangial cell development ISS
Inferred from Sequence or Structural Similarity
more info
 
monocyte chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of gene expression IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of phosphatidylinositol biosynthetic process IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of platelet activation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of pri-miRNA transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of protein binding IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of vascular smooth muscle cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
paracrine signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
peptidyl-serine phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
peptidyl-tyrosine phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
platelet degranulation TAS
Traceable Author Statement
more info
 
platelet-derived growth factor receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
platelet-derived growth factor receptor signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
positive chemotaxis IEA
Inferred from Electronic Annotation
more info
 
positive regulation of DNA biosynthetic process IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of ERK1 and ERK2 cascade IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of ERK1 and ERK2 cascade IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of MAP kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of MAP kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of MAPK cascade IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of blood vessel endothelial cell migration IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of calcium ion import IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cell division IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of cell migration IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cell proliferation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cyclin-dependent protein serine/threonine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of endothelial cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of fibroblast proliferation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of gene expression IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of glomerular filtration ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of glomerular mesangial cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of hyaluronan biosynthetic process IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of metanephric mesenchymal cell migration IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of mitotic nuclear division IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of peptidyl-tyrosine phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of phosphatidylinositol 3-kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of phosphatidylinositol 3-kinase signaling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of phosphatidylinositol 3-kinase signaling IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of pri-miRNA transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of protein autophosphorylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of protein autophosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of protein kinase B signaling TAS
Traceable Author Statement
more info
 
positive regulation of protein tyrosine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of reactive oxygen species metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of smooth muscle cell migration IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of smooth muscle cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of vascular associated smooth muscle cell migration IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of vascular smooth muscle cell dedifferentiation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of vascular smooth muscle cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
protein kinase C signaling IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
reactive oxygen species metabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to wounding IDA
Inferred from Direct Assay
more info
PubMed 
response to wounding NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
Golgi lumen TAS
Traceable Author Statement
more info
 
Golgi membrane TAS
Traceable Author Statement
more info
 
basolateral plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
cell surface IDA
Inferred from Direct Assay
more info
PubMed 
collagen-containing extracellular matrix HDA PubMed 
cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
endoplasmic reticulum lumen TAS
Traceable Author Statement
more info
 
extracellular region NAS
Non-traceable Author Statement
more info
PubMed 
extracellular region TAS
Traceable Author Statement
more info
 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
platelet alpha granule lumen TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
platelet-derived growth factor subunit B
Names
PDGF subunit B
PDGF, B chain
becaplermin
epididymis secretory sperm binding protein
platelet-derived growth factor 2
platelet-derived growth factor B chain
platelet-derived growth factor beta polypeptide (simian sarcoma viral (v-sis) oncogene homolog)
platelet-derived growth factor, beta polypeptide (oncogene SIS)
proto-oncogene c-Sis

NCBI Reference Sequences (RefSeq)

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_012111.1 RefSeqGene

    Range
    4971..26594
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_002608.4NP_002599.1  platelet-derived growth factor subunit B isoform 1 preproprotein

    See identical proteins and their annotated locations for NP_002599.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1), which contains a signal peptide.
    Source sequence(s)
    BC029822, BC077725, CD386140, M12783, X02811, Z81010
    Consensus CDS
    CCDS13987.1
    UniProtKB/Swiss-Prot
    P01127
    Related
    ENSP00000330382.6, ENST00000331163.11
    Conserved Domains (2) summary
    pfam00341
    Location:97180
    PDGF; PDGF/VEGF domain
    pfam04692
    Location:2193
    PDGF_N; Platelet-derived growth factor, N terminal region
  2. NM_033016.3NP_148937.1  platelet-derived growth factor subunit B isoform 2

    See identical proteins and their annotated locations for NP_148937.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate 5' terminal exon, resulting in the use of an alternate start codon compared to variant (1). The encoded isoform (2) has a shorter and distinct N-terminus, and lacks a signal peptide compared to isoform 1. It is not known whether this isoform (2) is proteolytically processed in the same manner as isoform (1).
    Source sequence(s)
    BC029822, M12783, X83705, Z81010
    Consensus CDS
    CCDS33650.1
    UniProtKB/Swiss-Prot
    P01127
    Related
    ENSP00000370963.4, ENST00000381551.8
    Conserved Domains (2) summary
    pfam00341
    Location:82165
    PDGF; PDGF/VEGF domain
    pfam04692
    Location:778
    PDGF_N; Platelet-derived growth factor, N terminal region

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000022.11 Reference GRCh38.p13 Primary Assembly

    Range
    39223359..39244982 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Support Center