Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0013453
UniProt IDP01127
Primary gene name(s)PDGFB
Synonym gene name(s)PDGF2, SIS
Protein namePlatelet-derived growth factor subunit B
Protein functionGrowth factor that plays an essential role in the regulation of embryonic development, cell proliferation, cell migration, survival and chemotaxis. Potent mitogen for cells of mesenchymal origin, PubMed:26599395. Required for normal proliferation and recruitment of pericytes and vascular smooth muscle cells in the central nervous system, skin, lung, heart and placenta. Required for normal blood vessel development, and for normal development of kidney glomeruli. Plays an important role in wound healing. Signaling is modulated by the formation of heterodimers with PDGFA, By similarity. {ECO:0000250|UniProtKB:P31240, ECO:0000269|PubMed:26599395}.
Subcellular locationSecreted. Note=Released by platelets upon wounding.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P01127
Gene Ontology
(Biological Process)
Complete annatation
activation of protein kinase activity [GO:0032147];
activation of protein kinase B activity [GO:0032148];
cell chemotaxis [GO:0060326];
cellular response to growth factor stimulus [GO:0071363];
cellular response to mycophenolic acid [GO:0071506];
embryonic placenta development [GO:0001892];
extracellular matrix organization [GO:0030198];
heart development [GO:0007507];
interleukin-18-mediated signaling pathway [GO:0035655];
MAPK cascade [GO:0000165];
metanephric glomerular mesangial cell development [GO:0072255];
monocyte chemotaxis [GO:0002548];
negative regulation of gene expression [GO:0010629];
negative regulation of phosphatidylinositol biosynthetic process [GO:0010512];
negative regulation of platelet activation [GO:0010544];
negative regulation of pri-miRNA transcription from RNA polymerase II promoter [GO:1902894];
negative regulation of protein binding [GO:0032091];
negative regulation of transcription, DNA-templated [GO:0045892];
negative regulation of vascular smooth muscle cell differentiation [GO:1905064];
paracrine signaling [GO:0038001];
peptidyl-serine phosphorylation [GO:0018105];
peptidyl-tyrosine phosphorylation [GO:0018108];
phosphatidylinositol-mediated signaling [GO:0048015];
platelet degranulation [GO:0002576];
platelet-derived growth factor receptor signaling pathway [GO:0048008];
positive regulation of blood vessel endothelial cell migration [GO:0043536];
positive regulation of calcium ion import [GO:0090280];
positive regulation of cell division [GO:0051781];
positive regulation of cell migration [GO:0030335];
positive regulation of cell proliferation [GO:0008284];
positive regulation of chemotaxis [GO:0050921];
positive regulation of cyclin-dependent protein serine/threonine kinase activity [GO:0045737];
positive regulation of DNA biosynthetic process [GO:2000573];
positive regulation of DNA replication [GO:0045740];
positive regulation of endothelial cell proliferation [GO:0001938];
positive regulation of ERK1 and ERK2 cascade [GO:0070374];
positive regulation of fibroblast proliferation [GO:0048146];
positive regulation of gene expression [GO:0010628];
positive regulation of glomerular filtration [GO:0003104];
positive regulation of glomerular mesangial cell proliferation [GO:0072126];
positive regulation of hyaluronan biosynthetic process [GO:1900127];
positive regulation of MAPK cascade [GO:0043410];
positive regulation of MAP kinase activity [GO:0043406];
positive regulation of metanephric mesenchymal cell migration [GO:2000591];
positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway [GO:0035793];
positive regulation of mitotic nuclear division [GO:0045840];
positive regulation of peptidyl-tyrosine phosphorylation [GO:0050731];
positive regulation of phosphatidylinositol 3-kinase activity [GO:0043552];
positive regulation of phosphatidylinositol 3-kinase signaling [GO:0014068];
positive regulation of pri-miRNA transcription from RNA polymerase II promoter [GO:1902895];
positive regulation of protein autophosphorylation [GO:0031954];
positive regulation of protein tyrosine kinase activity [GO:0061098];
positive regulation of reactive oxygen species metabolic process [GO:2000379];
positive regulation of smooth muscle cell migration [GO:0014911];
positive regulation of smooth muscle cell proliferation [GO:0048661];
positive regulation of transcription, DNA-templated [GO:0045893];
positive regulation of vascular associated smooth muscle cell migration [GO:1904754];
positive regulation of vascular smooth muscle cell dedifferentiation [GO:1905176];
positive regulation of vascular smooth muscle cell proliferation [GO:1904707];
protein kinase C signaling [GO:0070528];
protein phosphorylation [GO:0006468];
reactive oxygen species metabolic process [GO:0072593];
regulation of phosphatidylinositol 3-kinase signaling [GO:0014066];
response to wounding [GO:0009611];
transforming growth factor beta receptor signaling pathway [GO:0007179]
Gene Ontology
(Molecular Function)
Complete annatation
chemoattractant activity [GO:0042056];
collagen binding [GO:0005518];
growth factor activity [GO:0008083];
identical protein binding [GO:0042802];
phosphatidylinositol-4,5-bisphosphate 3-kinase activity [GO:0046934];
platelet-derived growth factor binding [GO:0048407];
platelet-derived growth factor receptor binding [GO:0005161];
protein heterodimerization activity [GO:0046982];
protein homodimerization activity [GO:0042803];
Ras guanyl-nucleotide exchange factor activity [GO:0005088];
superoxide-generating NADPH oxidase activator activity [GO:0016176]
Gene Ontology
(Cellular Component)
Complete annatation
basolateral plasma membrane [GO:0016323];
cell surface [GO:0009986];
cytoplasm [GO:0005737];
endoplasmic reticulum lumen [GO:0005788];
extracellular region [GO:0005576];
extracellular space [GO:0005615];
Golgi membrane [GO:0000139];
platelet alpha granule lumen [GO:0031093]
Protein-protein interaction111181
Phylogenetic treeP01127
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
      unknown
Brass et al., Science, 2008
      unknown
Smith et al., J. Immunol, 2010
      unknown
Interferon-stimulated
gene status
Lu et al., J. Virol., 2011
      Folds changes 8h: unknown; Folds changes 16h: unknown; Tested: unknown;
Schoggins JW and Rice CM, Curr. Opin. Virol., 2011
      Targeted viruses: unknown
      Viral life cycle: unknown
      Mechanism related to antiviral activity: unknown
Anti-viral restriction factor Liu et al., Retrovirology, 2011
      unknown (Triplicates)

Gene Expression Profile       top

            Up-regulated;            Down-regulated

For brief introduction to each study, please go to the help page.

Gene expression during HIV latency

(1). Mohammadi et al., PLoS Pathog., 2014

Differentially expressed transcripts (Pairwise) during latency and subsequent viral reactivation using several agents - Primary CD4+ T-cell based model


DMSO: Dimethyl suloxyde (negative control) - 0.0033% final
SAHA: Vorinostat (Histone deacetylase inhibitor) - 0.5 μM
CD3: TCR Stimulation by IL-2+ antiCD3/anti-CD28 antibodies
IL7: Interleukin-7 based stimulation
DISU: Disulfiram (alcohol dehydrogenase inhibitor) - 0.5 μM
AZA: 5-azacytidine (AZA; DNA methylation inhibitor) - 1 μM
Experimental Condition Log2 Fold Change P value Adjusted P value
AZA vs. CD3unknownunknownunknown
AZA vs. DISUunknownunknownunknown
AZA vs. IL7unknownunknownunknown
AZA vs. SAHAunknownunknownunknown
DISU vs. CD3unknownunknownunknown
DISU vs. IL7unknownunknownunknown
DISU vs. SAHAunknownunknownunknown
DMSO vs. AZAunknownunknownunknown
DMSO vs. CD3unknownunknownunknown
DMSO vs. DISUunknownunknownunknown
DMSO vs. IL7unknownunknownunknown
DMSO vs. SAHAunknownunknownunknown
HIV vs. Mock in Activationunknownunknownunknown
HIV vs. Mock in Latency-0.8644660001743450.2325693821691560.999834320637052
IL7 vs. CD3unknownunknownunknown
SAHA vs. CD3unknownunknownunknown
SAHA vs. IL7unknownunknownunknown
(2). Iglesias-Ussel et al., J. Virol., 2013

Up and Downregulated transcripts during Latency (Latently infected CD4+ T cells vs Uninfected)- Primary CD4+Tcell based model
Log2 Fold Change P Value
unknown unknown

Gene expression during HIV infection and replication

(1). Imbeault et al., PloS Pathog., 2012

Transcriptomic profiling of HIV-1 infected CD4+ T cells - Primary CD4+ T cells
Experiment type Log2 Fold Change P Value Adjusted P Value
Infected vs. Mock unknown unknown unknown
Infected vs. Bystander unknown unknown unknown
(2). Lefebvre et al., J. Virol., 2011

Transcriptome analysis of T-cell line (Sup T1)
Log2 Fold Change unknown
(3). Li et al., J. Immunol., 2013

Lymphatic tissue
Acute Fold Change Acute P Value Asymt Fold Change Asypt P Value AIDS Fold Change AIDS P Value
unknown unknown unknown unknown unknown unknown
(4). Chang et al., MBio., 2011

Transcriptome analysis of T-cell line (Sup T1)

Derived from Sherrill-Mix et al., BMC Retrovirol., 2015 cross validation
Up-regulated (True) unknown
(5). Sherrill-Mix et al., BMC Retrovirol., 2015

Deep RNA-seq analysis of primary human T cell infected with low passage HIV isolate HIV89.6 - Primary CD4+ T cell based
Test Status Log2 Fold Change P Value
NOTEST -0.666237 1
(6). Rotger et al., PLoS Pathog., 2010

Genome-wide mRNA expression of CD4+ T cells from HIV-infected patient
(Genes differentially expressed (at adjusted p<0.01) according to the empirical Bayes approach)
Log2 Fold Change P Value
unknown unknown

Proteomic/Transcriptomics studies indicating differentially expressed genes mediated by HIV

(1). Greenwood et al., Elife, 2016

Activated (CD3/CD28) Primary human CD4+ T cells infected with pNL4-3-dE-EGFP. The table shows the complete (unfiltered) TMT (tandem mass tag)-based proteomic time course dataset
6 h 24 h 48 h 72 h RTi
unknown unknown unknown unknown unknown
(2). Navare et al., Virology, 2012

SUP-T1 cell line
FC-4hpi P-value FC-8hpi P-value FC-20hpi P-value Category
unknown unknown unknown unknown unknown unknown unknown
(3). Hyrcza et al., J. Virolo., 2007

Primary human CD4+ and CD8+ T Cells
Affymetrix Prob ID Fold Change In CD8? Category
unknown unknown unknown unknown

Protein Overview       top

Drug-protein Interaction       (annotations from DrugBank)      top

not found

Protein Secondary Structure       (annotations from PDB)      top

PDB Accession Method Resolution Chain Structure Preview
1PDG X-ray 3.0Å A/B/C=82-190.
3MJG X-ray 2.3Å A/B=21-185.
4HQU X-ray 2.2Å A=82-190.
4HQX X-ray 2.3Å A=82-183.
4QCI X-ray 2.3Å C/D=82-190.

HIV-1 Interaction       (annotations from NCBI HIV-1 Interaction Database)      top

HIV Partner Interaction Type PubMed
Tat inhibited by 21483469
2378414321483469
2378414321483469
2378414321483469
2378414321483469
23784143
Envelope surface glycoprotein gp120 inhibited by 18300076
18973553
2378414318300076
18973553
2378414318973553
23784143
Tat upregulates 21368226
2378414321819559
2378414325164676
Envelope surface glycoprotein gp120 upregulates 21819559
23784143

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa01521 EGFR tyrosine kinase inhibitor resistance - Homo sapiens (human)
hsa04010 MAPK signaling pathway - Homo sapiens (human)
hsa04014 Ras signaling pathway - Homo sapiens (human)
hsa04015 Rap1 signaling pathway - Homo sapiens (human)
hsa04060 Cytokine-cytokine receptor interaction - Homo sapiens (human)
hsa04072 Phospholipase D signaling pathway - Homo sapiens (human)
hsa04151 PI3K-Akt signaling pathway - Homo sapiens (human)
hsa04510 Focal adhesion - Homo sapiens (human)
hsa04540 Gap junction - Homo sapiens (human)
hsa04810 Regulation of actin cytoskeleton - Homo sapiens (human)
hsa05166 HTLV-I infection - Homo sapiens (human)
hsa05200 Pathways in cancer - Homo sapiens (human)
hsa05206 MicroRNAs in cancer - Homo sapiens (human)
hsa05211 Renal cell carcinoma - Homo sapiens (human)
hsa05214 Glioma - Homo sapiens (human)
hsa05215 Prostate cancer - Homo sapiens (human)
hsa05218 Melanoma - Homo sapiens (human)
hsa05231 Choline metabolism in cancer - Homo sapiens (human)
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