Reviewed, UniProtKB/Swiss-Prot P01127 (PDGFB_HUMAN)

Names and origin

Protein names

Recommended name:
    Platelet-derived growth factor subunit B
      Short name=PDGF subunit B
Alternative name(s):
    Platelet-derived growth factor B chain
    Platelet-derived growth factor beta polypeptide
    PDGF-2
    c-sis
    INN=Becaplermin

Gene names

Name:	PDGFB
Synonyms:	PDGF2, SIS

Organism

Homo sapiens (Human) [Complete proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	241 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Platelet-derived growth factor is a potent mitogen for cells of mesenchymal origin. Binding of this growth factor to its affinity receptor elicits a variety of cellular responses. It is released by platelets upon wounding and plays an important role in stimulating adjacent cells to grow and thereby heals the wound.
Subunit structure	Antiparallel disulfide-linked dimer of non-identical (A and B) chains. Homodimers of A and B chains are implicated in transformation processes. Interacts with XLKD1 By similarity.
Subcellular location	Secreted.
Tissue specificity	Expressed at high levels in the heart, brain (sustantia nigra), placenta and fetal kidney. Expressed at moderate levels in the brain (hippocampus), skeletal muscle, kidney and lung. Ref.17
Involvement in disease	A chromosomal aberration involving PDGFB is a cause of dermatofibrosarcoma protuberans (DFSP) [MIM:607907]. Translocation t(17;22)(q22;q13) with COLA1. DFSP is an uncommon, locally aggressive, but rarely metastasizing tumor of the deep dermis and subcutaneous tissue. It typically occurs during early or middle adult life and is most frequently located on the trunk and proximal extremities. Ref.19
Pharmaceutical use	Available under the name Regranex (Ortho-McNeil). Used to promote healing in diabetic neuropathic foot ulcers.
Miscellaneous	A-A and B-B, as well as A-B, dimers can bind to the PDGF receptor.
Sequence similarities	Belongs to the PDGF/VEGF growth factor family.

Ontologies

Keywords
Cellular component	Secreted
Coding sequence diversity	Chromosomal rearrangement Polymorphism
Disease	Proto-oncogene
Domain	Signal
Molecular function	Growth factor Mitogen
PTM	Cleavage on pair of basic residues Disulfide bond
Technical term	3D-structure Complete proteome Direct protein sequencing Pharmaceutical
Gene Ontology (GO)
Biological process	monocyte chemotaxis Inferred from direct assay. Source: UniProtKB negative regulation of phosphatidylinositol biosynthetic process Inferred from direct assay. Source: UniProtKB negative regulation of platelet activation Inferred from direct assay. Source: UniProtKB platelet-derived growth factor receptor signaling pathway Inferred from direct assay. Source: UniProtKB positive regulation of DNA replication Inferred from direct assay. Source: UniProtKB positive regulation of MAP kinase activity Inferred from direct assay. Source: UniProtKB positive regulation of blood vessel endothelial cell migration Inferred from direct assay. Source: UniProtKB positive regulation of cell division Inferred from electronic annotation. Source: UniProtKB-KW positive regulation of chemotaxis Inferred from direct assay. Source: UniProtKB positive regulation of endothelial cell proliferation Inferred from direct assay. Source: UniProtKB positive regulation of fibroblast proliferation Inferred from direct assay. Source: UniProtKB positive regulation of smooth muscle cell migration Inferred from direct assay. Source: UniProtKB response to wounding Ref.15 Non-traceable author statement. Source: UniProtKB
Cellular component	cell surface Inferred from direct assay. Source: UniProtKB extracellular region Ref.15 Non-traceable author statement. Source: UniProtKB membrane Inferred from electronic annotation. Source: InterPro platelet dense granule lumen Inferred from Experiment. Source: Reactome
Molecular function	cell surface binding Inferred from direct assay. Source: UniProtKB collagen binding Inferred from direct assay. Source: MGI growth factor activity Inferred from electronic annotation. Source: UniProtKB-KW platelet-derived growth factor binding Inferred from physical interaction. Source: UniProtKB platelet-derived growth factor receptor binding Ref.15 Non-traceable author statement. Source: UniProtKB protein heterodimerization activity Inferred from physical interaction. Source: UniProtKB protein homodimerization activity Inferred from direct assay. Source: UniProtKB
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
PDGFRB	P09619	1	EBI-1554925,EBI-641237

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 20

20

Propeptide

21 – 81

61

Removed in mature form

PRO_0000023371

Chain

82 – 190

109

Platelet-derived growth factor subunit B

PRO_0000023372

Propeptide

191 – 241

51

Removed in mature form

PRO_0000023373

Sites

Site

108

1

Involved in receptor binding

Site

111

1

Involved in receptor binding

Amino acid modifications

Disulfide bond

97 ↔ 141

Ref.16

Disulfide bond

124

Interchain Ref.16

Disulfide bond

130 ↔ 178

Ref.16

Disulfide bond

133

Interchain Ref.16

Disulfide bond

134 ↔ 180

Ref.16

Natural variations

Natural variant

88

1

I → V: dbSNP rs17565.

VAR_014578

Experimental info

Sequence conflict

101

1

T → E AA sequence Ref.13

Sequence conflict

105

1

E → C AA sequence Ref.13

Sequence conflict

107

1

S → C AA sequence Ref.13

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

241

Helix Strand Turn

Details...

Beta strand

97 – 105

9

Beta strand

120 – 131

12

Beta strand

139 – 144

6

Beta strand

146 – 159

14

Beta strand

162 – 175

14

Beta strand

178 – 182

5

Sequences

	Sequence		Length	Mass (Da)
	P01127-1 [UniParc]. Last modified July 21, 1986. Version 1. Checksum: 9F9A3474CE203C0B	FASTA	241	27,283
	10 20 30 40 50 60 MNRCWALFLS LCCYLRLVSA EGDPIPEELY EMLSDHSIRS FDDLQRLLHG DPGEEDGAEL 70 80 90 100 110 120 DLNMTRSHSG GELESLARGR RSLGSLTIAE PAMIAECKTR TEVFEISRRL IDRTNANFLV 130 140 150 160 170 180 WPPCVEVQRC SGCCNNRNVQ CRPTQVQLRP VQVRKIEIVR KKPIFKKATV TLEDHLACKC 190 200 210 220 230 240 ETVAAARPVT RSPGGSQEQR AKTPQTRVTI RTVRVRRPPK GKHRKFKHTH DKTALKETLG A

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Transforming potential of human c-sis nucleotide sequences encoding platelet-derived growth factor." Josephs S.F., Ratner L., Clarke M.F., Westin E.H., Reitz M.S., Wong-Staal F. Science 225:636-639(1984) [PubMed: 6740330] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Cultured human endothelial cells express platelet-derived growth factor B chain: cDNA cloning and structural analysis." Collins T., Ginsburg D., Boss J.M., Orkin S.H., Pober J.S. Nature 316:748-750(1985) [PubMed: 4033772] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[3]	"Nucleotide sequence of transforming human c-sis cDNA clones with homology to platelet-derived growth factor." Ratner L., Josephs S.F., Jarrett R., Reitz M.S., Wong-Staal F. Nucleic Acids Res. 13:5007-5018(1985) [PubMed: 2991848] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[4]	"Oncogenic potential of the human platelet-derived growth factor transcriptional unit." Rao C.D., Igarashi H., Pech M.W., Robbins K.C., Aaronson S.A. Cold Spring Harb. Symp. Quant. Biol. 51:959-966(1986) [PubMed: 3472769] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[5]	"Structure and sequence of the human c-sis/platelet-derived growth factor 2 (SIS/PDGF2) transcriptional unit." Rao C.D., Igarashi H., Chiu I.-M., Robbins K.C., Aaronson S.A. Proc. Natl. Acad. Sci. U.S.A. 83:2392-2396(1986) [PubMed: 3517869] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[6]	"A genome annotation-driven approach to cloning the human ORFeome." Collins J.E., Wright C.L., Edwards C.A., Davis M.P., Grinham J.A., Cole C.G., Goward M.E., Aguado B., Mallya M., Mokrab Y., Huckle E.J., Beare D.M., Dunham I. Genome Biol. 5:RESEARCH84.1-RESEARCH84.11(2004) [PubMed: 15461802] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
[7]	"The DNA sequence of human chromosome 22." Dunham I., Hunt A.R., Collins J.E., Bruskiewich R., Beare D.M., Clamp M., Smink L.J., Ainscough R., Almeida J.P., Babbage A.K., Bagguley C., Bailey J., Barlow K.F., Bates K.N., Beasley O.P., Bird C.P., Blakey S.E., Bridgeman A.M. , Buck D., Burgess J., Burrill W.D., Burton J., Carder C., Carter N.P., Chen Y., Clark G., Clegg S.M., Cobley V.E., Cole C.G., Collier R.E., Connor R., Conroy D., Corby N.R., Coville G.J., Cox A.V., Davis J., Dawson E., Dhami P.D., Dockree C., Dodsworth S.J., Durbin R.M., Ellington A.G., Evans K.L., Fey J.M., Fleming K., French L., Garner A.A., Gilbert J.G.R., Goward M.E., Grafham D.V., Griffiths M.N.D., Hall C., Hall R.E., Hall-Tamlyn G., Heathcott R.W., Ho S., Holmes S., Hunt S.E., Jones M.C., Kershaw J., Kimberley A.M., King A., Laird G.K., Langford C.F., Leversha M.A., Lloyd C., Lloyd D.M., Martyn I.D., Mashreghi-Mohammadi M., Matthews L.H., Mccann O.T., Mcclay J., Mclaren S., McMurray A.A., Milne S.A., Mortimore B.J., Odell C.N., Pavitt R., Pearce A.V., Pearson D., Phillimore B.J.C.T., Phillips S.H., Plumb R.W., Ramsay H., Ramsey Y., Rogers L., Ross M.T., Scott C.E., Sehra H.K., Skuce C.D., Smalley S., Smith M.L., Soderlund C., Spragon L., Steward C.A., Sulston J.E., Swann R.M., Vaudin M., Wall M., Wallis J.M., Whiteley M.N., Willey D.L., Williams L., Williams S.A., Williamson H., Wilmer T.E., Wilming L., Wright C.L., Hubbard T., Bentley D.R., Beck S., Rogers J., Shimizu N., Minoshima S., Kawasaki K., Sasaki T., Asakawa S., Kudoh J., Shintani A., Shibuya K., Yoshizaki Y., Aoki N., Mitsuyama S., Roe B.A., Chen F., Chu L., Crabtree J., Deschamps S., Do A., Do T., Dorman A., Fang F., Fu Y., Hu P., Hua A., Kenton S., Lai H., Lao H.I., Lewis J., Lewis S., Lin S.-P., Loh P., Malaj E., Nguyen T., Pan H., Phan S., Qi S., Qian Y., Ray L., Ren Q., Shaull S., Sloan D., Song L., Wang Q., Wang Y., Wang Z., White J., Willingham D., Wu H., Yao Z., Zhan M., Zhang G., Chissoe S., Murray J., Miller N., Minx P., Fulton R., Johnson D., Bemis G., Bentley D., Bradshaw H., Bourne S., Cordes M., Du Z., Fulton L., Goela D., Graves T., Hawkins J., Hinds K., Kemp K., Latreille P., Layman D., Ozersky P., Rohlfing T., Scheet P., Walker C., Wamsley A., Wohldmann P., Pepin K., Nelson J., Korf I., Bedell J.A., Hillier L.W., Mardis E., Waterston R., Wilson R., Emanuel B.S., Shaikh T., Kurahashi H., Saitta S., Budarf M.L., McDermid H.E., Johnson A., Wong A.C.C., Morrow B.E., Edelmann L., Kim U.J., Shizuya H., Simon M.I., Dumanski J.P., Peyrard M., Kedra D., Seroussi E., Fransson I., Tapia I., Bruder C.E., O'Brien K.P., Wilkinson P., Bodenteich A., Hartman K., Hu X., Khan A.S., Lane L., Tilahun Y., Wright H. Nature 402:489-495(1999) [PubMed: 10591208] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[8]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Brain, Lung, Pancreas and Testis.
[9]	"Deregulation of the platelet-derived growth factor B-chain gene via fusion with collagen gene COL1A1 in dermatofibrosarcoma protuberans and giant-cell fibroblastoma." Simon M.-P., Pedeutour F., Sirvent N., Grosgeorge J., Minoletti F., Coindre J.-M., Terrier-Lacombe M.-J., Mandahl N., Craver R.D., Blin N., Sozzi G., Turc-Carel C., O'Brien K.P., Kedra D., Fransson I., Guilbaud C., Dumanski J.P. Nat. Genet. 15:95-98(1997) [PubMed: 8988177] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-53, CHROMOSOMAL TRANSLOCATION WITH COL1A1.
[10]	"Nucleotide sequence analysis identifies the human c-sis proto-oncogene as a structural gene for platelet-derived growth factor." Chiu I.-M., Reddy E.P., Givol D., Robbins K.C., Tronick S.R., Aaronson S.A. Cell 37:123-129(1984) [PubMed: 6327048] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 22-241.
[11]	"The human osteosarcoma cell line U-2 OS expresses a 3.8 kilobase mRNA which codes for the sequence of the PDGF-B chain." Weich H.A., Sebald W., Schairer H.U., Hoppe J. FEBS Lett. 198:344-348(1986) [PubMed: 3456904] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 26-241.
[12]	"Platelet-derived growth factor is structurally related to the putative transforming protein p28sis of simian sarcoma virus." Waterfield M.D., Scrace G.T., Whittle N., Stroobant P., Johnsson A., Wasteson A., Westermark B., Heldin C.H., Huang J.S., Deuel T.F. Nature 304:35-39(1983) [PubMed: 6306471] [Abstract] Cited for: PROTEIN SEQUENCE OF 82-112.
[13]	"Human platelet-derived growth factor (PDGF): amino-terminal amino acid sequence." Antoniades H.N., Hunkapiller M.W. Science 220:963-965(1983) [PubMed: 6844921] [Abstract] Cited for: PROTEIN SEQUENCE OF 82-110.
[14]	"The c-sis gene encodes a precursor of the B chain of platelet-derived growth factor." Johnsson A., Heldin C.H., Wasteson A., Westermark B., Deuel T.F., Huang J.S., Seeburg P.H., Gray A., Ullrich A., Scrace G., Stroobant P., Waterfield M.D. EMBO J. 3:921-928(1984) [PubMed: 6329745] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 153-200, PARTIAL PROTEIN SEQUENCE.
[15]	"Two PDGF-B chain residues, arginine 27 and isoleucine 30, mediate receptor binding and activation." Clements J.M., Bawden L.J., Bloxidge R.E., Catlin G., Cook A.L., Craig S., Drummond A.H., Edwards R.M., Fallon A., Green D.R., Hellewell P.G., Kirwin P.M., Nayee P.D., Richardson S.J., Brown D., Chahwala S.B., Snarey M., Winslow D. EMBO J. 10:4113-4120(1991) [PubMed: 1661670] [Abstract] Cited for: MUTAGENESIS, IMPORTANCE OF ARG-108 AND ILE-111 FOR RECEPTOR BINDING.
[16]	"Assignment of interchain disulfide bonds in platelet-derived growth factor (PDGF) and evidence for agonist activity of monomeric PDGF." Andersson M., Oestman A., Baeckstroem G., Hellman U., George-Nascimento C., Westermark B., Heldin C.-H. J. Biol. Chem. 267:11260-11266(1992) [PubMed: 1317862] [Abstract] Cited for: INTERCHAIN DISULFIDE BONDS.
[17]	"PDGF D, a novel protease-activated growth factor." LaRochelle W.J., Jeffers M., McDonald W.F., Chillakuru R.A., Giese N.A., Lokker N.A., Sullivan C., Boldog F.L., Yang M., Vernet C., Burgess C.E., Fernandez E., Deegler L.L., Rittman B., Shimkets J., Shimkets R.A., Rothberg J.M., Lichenstein H.S. Nat. Cell Biol. 3:517-521(2001) [PubMed: 11331882] [Abstract] Cited for: TISSUE SPECIFICITY.
[18]	"Crystal structure of human platelet-derived growth factor BB." Oefner C., D'Arcy A., Winkler F.K., Eggimann B., Hosang M. EMBO J. 11:3921-3926(1992) [PubMed: 1396586] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS).
[19]	"Dermatofibrosarcoma protuberans of breast." Sandberg A.A., Anderson W.D., Fredenberg C., Hashimoto H. Cancer Genet. Cytogenet. 142:56-59(2003) [PubMed: 12660034] [Abstract] Cited for: DISEASE, CHROMOSOMAL TRANSLOCATION WITH COL1A1.
+	Additional computationally mapped references.

Web resources

R&D Systems' cytokine source book: PDGF

Regranex

Clinical information on Regranex

Atlas of Genetics and Cytogenetics in Oncology and Haematology

Cross-references

Sequence databases

EMBLGenBankDDBJ

K01401 , K01918, J00121, K01398, K01399, K01400 Genomic DNA. Translation: AAA60552.1.
X02811 mRNA. Translation: CAA26579.1.
X02744 mRNA. Translation: CAA26524.1.
M12783 mRNA. Translation: AAA60553.1.
CR456538 mRNA. Translation: CAG30424.1.
Z81010 Genomic DNA. Translation: CAB02635.1.
BC029822 mRNA. Translation: AAH29822.1.
BC077725 mRNA. Translation: AAH77725.1.
X98706 Genomic DNA. Translation: CAA67262.1.
K01917 , K01913, K01914, K01915, K01916 Genomic DNA. Translation: AAA98793.1.
X03702 mRNA. Translation: CAA27333.1.
X00561 Genomic DNA. Translation: CAA25228.1.
X00561 Genomic DNA. Translation: CAA25229.1.

IPI

IPI00000044.

PIR

PFHUG2. A94276.

RefSeq

NP_002599.1.
NP_148937.1.

UniGene

Hs.1976

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1PDG	X-ray	3.00	A/B/C	82-190	[»]

ModBase

Search...

Protein-protein interaction databases

DIP

DIP:5737N.

IntAct

P01127. 2 interactions.

STRING

P01127.

Proteomic databases

PRIDE

P01127.

Genome annotation databases

Ensembl

ENST00000331163; ENSP00000330382; ENSG00000100311; Homo sapiens. [Genome view]
ENST00000381551; ENSP00000370963; ENSG00000100311; Homo sapiens. [Genome view]
ENST00000396740; ENSP00000379966; ENSG00000100311; Homo sapiens. [Genome view]
ENST00000423652; ENSP00000408574; ENSG00000100311; Homo sapiens. [Genome view]
ENST00000440375; ENSP00000405780; ENSG00000100311; Homo sapiens. [Genome view]
ENST00000455790; ENSP00000402306; ENSG00000100311; Homo sapiens. [Genome view]

GeneID

5155.

KEGG

hsa:5155.

UCSC

uc003axf.1. human.

Organism-specific databases

CTD

5155.

GeneCards

GC22M037944.

H-InvDB

HIX0016487.

HGNC

HGNC:8800. PDGFB.

HPA

CAB011604.
CAB018341.
HPA011972.

MIM

190040. gene.
607907. phenotype.

Orphanet

31112. Dermatofibrosarcoma protuberans.

PharmGKB

PA33145.

GenAtlas

Search...

Phylogenomic databases

HOGENOM

P01127.

HOVERGEN

P01127.

OMA

CKCETVV.

Enzyme and pathway databases

Pathway_Interaction_DB

pdgfrapathway. PDGFR-alpha signaling pathway.
pdgfrbpathway. PDGFR-beta signaling pathway.

Reactome

REACT_16888. Signaling by PDGF.
REACT_604. Hemostasis.

Gene expression databases

ArrayExpress

P01127.

Bgee

P01127.

CleanEx

HS_PDGFB.

Genevestigator

P01127.

GermOnline

ENSG00000100311. Homo sapiens.

Family and domain databases

InterPro

IPR000072. PD_growth_factor.
IPR015583. PDGF_B.
IPR006782. PDGF_N.
[Graphical view]

PANTHER

PTHR11633:SF2. PDGF_B. 1 hit.

Pfam

PF00341. PDGF. 1 hit.
PF04692. PDGF_N. 1 hit.
[Graphical view]

ProDom

PD001629. PD_growth_factor. 1 hit.
[Graphical view] [Entries sharing at least one domain]

SMART

SM00141. PDGF. 1 hit.
[Graphical view]

PROSITE

PS00249. PDGF_1. 1 hit.
PS50278. PDGF_2. 1 hit.
[Graphical view]

ProtoNet

Search...

Other Resources

DrugBank

DB00102. Becaplermin.

NextBio

19940.

PMAP-CutDB

P01127.

SOURCE

Search...

Entry information

Entry name

PDGFB_HUMAN

Accession

Primary (citable) accession number: P01127
Secondary accession number(s): P78431, Q9UF23

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 21, 1986
Last sequence update:	July 21, 1986
Last modified:	November 3, 2009
This is version 129 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)

Disclaimer

Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.