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P49765

- VEGFB_HUMAN

UniProt

P49765 - VEGFB_HUMAN

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Protein
Vascular endothelial growth factor B
Gene
VEGFB, VRF
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Growth factor for endothelial cells. VEGF-B167 binds heparin and neuropilin-1 whereas the binding to neuropilin-1 of VEGF-B186 is regulated by proteolysis.

GO - Molecular functioni

  1. chemoattractant activity Source: UniProtKB
  2. heparin binding Source: UniProtKB-KW
  3. protein binding Source: UniProtKB
  4. vascular endothelial growth factor receptor 1 binding Source: UniProtKB

GO - Biological processi

  1. angiogenesis Source: Ensembl
  2. blood coagulation Source: Reactome
  3. cardiac muscle contraction Source: Ensembl
  4. coronary vasculature development Source: Ensembl
  5. induction of positive chemotaxis Source: UniProtKB
  6. negative regulation of apoptotic process Source: UniProtKB
  7. negative regulation of gene expression Source: UniProtKB
  8. negative regulation of neuron apoptotic process Source: UniProtKB
  9. platelet activation Source: Reactome
  10. platelet degranulation Source: Reactome
  11. positive chemotaxis Source: GOC
  12. positive regulation of ERK1 and ERK2 cascade Source: UniProtKB
  13. positive regulation of cell division Source: UniProtKB-KW
  14. positive regulation of endothelial cell proliferation Source: UniProtKB
  15. positive regulation of mast cell chemotaxis Source: UniProtKB
  16. positive regulation of peptidyl-tyrosine phosphorylation Source: UniProtKB
  17. positive regulation of protein kinase B signaling Source: UniProtKB
  18. positive regulation of vascular endothelial growth factor receptor signaling pathway Source: UniProtKB
  19. positive regulation of vascular wound healing Source: UniProtKB
  20. protein O-linked glycosylation Source: Ensembl
  21. response to drug Source: Ensembl
  22. vascular endothelial growth factor receptor signaling pathway Source: Reactome
Complete GO annotation...

Keywords - Molecular functioni

Growth factor, Mitogen

Keywords - Ligandi

Heparin-binding

Enzyme and pathway databases

ReactomeiREACT_12380. VEGF ligand-receptor interactions.
REACT_12583. VEGF binds to VEGFR leading to receptor dimerization.
SignaLinkiP49765.

Names & Taxonomyi

Protein namesi
Recommended name:
Vascular endothelial growth factor B
Short name:
VEGF-B
Alternative name(s):
VEGF-related factor
Short name:
VRF
Gene namesi
Name:VEGFB
Synonyms:VRF
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 11

Organism-specific databases

HGNCiHGNC:12681. VEGFB.

Subcellular locationi

Secreted
Note: Secreted but remains associated to cells or to the extracellular matrix unless released by heparin.

GO - Cellular componenti

  1. extracellular region Source: Reactome
  2. extracellular space Source: UniProtKB
  3. membrane Source: InterPro
  4. platelet alpha granule lumen Source: Reactome
Complete GO annotation...

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA37303.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2121 Reviewed prediction
Add
BLAST
Chaini22 – 207186Vascular endothelial growth factor B
PRO_0000023398Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi47 ↔ 891 Publication
Disulfide bondi72 – 72Interchain1 Publication
Disulfide bondi78 ↔ 1221 Publication
Disulfide bondi81 – 81Interchain1 Publication
Disulfide bondi82 ↔ 1241 Publication

Post-translational modificationi

VEGF-B186 is O-glycosylated By similarity.

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiP49765.
PRIDEiP49765.

Expressioni

Tissue specificityi

Expressed in all tissues except liver. Highest levels found in heart, skeletal muscle and pancreas.

Gene expression databases

ArrayExpressiP49765.
BgeeiP49765.
CleanExiHS_VEGFB.
GenevestigatoriP49765.

Organism-specific databases

HPAiCAB025499.
HPA044361.

Interactioni

Subunit structurei

Homodimer; disulfide-linked. Can also form heterodimer with VEGF.1 Publication

Protein-protein interaction databases

BioGridi113266. 3 interactions.
DIPiDIP-6045N.
IntActiP49765. 1 interaction.
STRINGi9606.ENSP00000311127.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni33 – 353
Helixi38 – 458
Beta strandi46 – 5510
Turni58 – 603
Beta strandi61 – 644
Beta strandi66 – 8116
Beta strandi83 – 864
Beta strandi88 – 10518
Beta strandi108 – 12518

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2C7WX-ray2.48A/B31-129[»]
2VWEX-ray3.40A/B22-196[»]
2XACX-ray2.71A/B31-129[»]
ProteinModelPortaliP49765.
SMRiP49765. Positions 31-129.

Miscellaneous databases

EvolutionaryTraceiP49765.

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiNOG77417.
HOGENOMiHOG000230896.
HOVERGENiHBG000105.
InParanoidiP49765.
KOiK16858.
OMAiASTPHHR.
OrthoDBiEOG74R1S0.
PhylomeDBiP49765.
TreeFamiTF319554.

Family and domain databases

Gene3Di2.10.90.10. 1 hit.
InterProiIPR029034. Cystine-knot_cytokine.
IPR023581. PD_growth_factor_CS.
IPR000072. PDGF/VEGF_dom.
[Graphical view]
PfamiPF00341. PDGF. 1 hit.
[Graphical view]
SMARTiSM00141. PDGF. 1 hit.
[Graphical view]
SUPFAMiSSF57501. SSF57501. 1 hit.
PROSITEiPS00249. PDGF_1. 1 hit.
PS50278. PDGF_2. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. Align

Note: Additional isoforms seem to exist.

Isoform VEGF-B186 (identifier: P49765-1) [UniParc]FASTAAdd to Basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

MSPLLRRLLL AALLQLAPAQ APVSQPDAPG HQRKVVSWID VYTRATCQPR    50
EVVVPLTVEL MGTVAKQLVP SCVTVQRCGG CCPDDGLECV PTGQHQVRMQ 100
ILMIRYPSSQ LGEMSLEEHS QCECRPKKKD SAVKPDRAAT PHHRPQPRSV 150
PGWDSAPGAP SPADITHPTP APGPSAHAAP STTSALTPGP AAAAADAAAS 200
SVAKGGA 207
Length:207
Mass (Da):21,602
Last modified:November 16, 2001 - v2
Checksum:iEDE4B1C0DFDAD6BC
GO
Isoform VEGF-B167 (identifier: P49765-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     137-188: RAATPHHRPQ...APSTTSALTP → SPRPLCPRCT...DTCRCRKLRR
     189-207: Missing.

Show »
Length:188
Mass (Da):21,261
Checksum:iF04654D5A3727194
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei137 – 18852RAATP…SALTP → SPRPLCPRCTQHHQRPDPRT CRCRCRRRSFLRCQGRGLEL NPDTCRCRKLRR in isoform VEGF-B167.
VSP_004639Add
BLAST
Alternative sequencei189 – 20719Missing in isoform VEGF-B167.
VSP_004640Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U43368 mRNA. Translation: AAA91462.1.
U43369 mRNA. Translation: AAA91463.1.
U52819 mRNA. Translation: AAC50721.1.
U48801 mRNA. Translation: AAB06274.1.
BC008818 mRNA. Translation: AAH08818.1.
CCDSiCCDS58144.1. [P49765-2]
CCDS8062.1. [P49765-1]
RefSeqiNP_001230662.1. NM_001243733.1. [P49765-2]
NP_003368.1. NM_003377.4. [P49765-1]
UniGeneiHs.732095.

Genome annotation databases

EnsembliENST00000309422; ENSP00000311127; ENSG00000173511. [P49765-1]
ENST00000426086; ENSP00000401550; ENSG00000173511. [P49765-2]
GeneIDi7423.
KEGGihsa:7423.
UCSCiuc001nyw.3. human. [P49765-1]
uc001nyx.3. human. [P49765-2]

Polymorphism databases

DMDMi17380554.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U43368 mRNA. Translation: AAA91462.1 .
U43369 mRNA. Translation: AAA91463.1 .
U52819 mRNA. Translation: AAC50721.1 .
U48801 mRNA. Translation: AAB06274.1 .
BC008818 mRNA. Translation: AAH08818.1 .
CCDSi CCDS58144.1. [P49765-2 ]
CCDS8062.1. [P49765-1 ]
RefSeqi NP_001230662.1. NM_001243733.1. [P49765-2 ]
NP_003368.1. NM_003377.4. [P49765-1 ]
UniGenei Hs.732095.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2C7W X-ray 2.48 A/B 31-129 [» ]
2VWE X-ray 3.40 A/B 22-196 [» ]
2XAC X-ray 2.71 A/B 31-129 [» ]
ProteinModelPortali P49765.
SMRi P49765. Positions 31-129.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 113266. 3 interactions.
DIPi DIP-6045N.
IntActi P49765. 1 interaction.
STRINGi 9606.ENSP00000311127.

Polymorphism databases

DMDMi 17380554.

Proteomic databases

PaxDbi P49765.
PRIDEi P49765.

Protocols and materials databases

DNASUi 7423.
Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000309422 ; ENSP00000311127 ; ENSG00000173511 . [P49765-1 ]
ENST00000426086 ; ENSP00000401550 ; ENSG00000173511 . [P49765-2 ]
GeneIDi 7423.
KEGGi hsa:7423.
UCSCi uc001nyw.3. human. [P49765-1 ]
uc001nyx.3. human. [P49765-2 ]

Organism-specific databases

CTDi 7423.
GeneCardsi GC11P064002.
HGNCi HGNC:12681. VEGFB.
HPAi CAB025499.
HPA044361.
MIMi 601398. gene.
neXtProti NX_P49765.
PharmGKBi PA37303.
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG77417.
HOGENOMi HOG000230896.
HOVERGENi HBG000105.
InParanoidi P49765.
KOi K16858.
OMAi ASTPHHR.
OrthoDBi EOG74R1S0.
PhylomeDBi P49765.
TreeFami TF319554.

Enzyme and pathway databases

Reactomei REACT_12380. VEGF ligand-receptor interactions.
REACT_12583. VEGF binds to VEGFR leading to receptor dimerization.
SignaLinki P49765.

Miscellaneous databases

EvolutionaryTracei P49765.
GeneWikii Vascular_endothelial_growth_factor_B.
GenomeRNAii 7423.
NextBioi 29076.
PROi P49765.
SOURCEi Search...

Gene expression databases

ArrayExpressi P49765.
Bgeei P49765.
CleanExi HS_VEGFB.
Genevestigatori P49765.

Family and domain databases

Gene3Di 2.10.90.10. 1 hit.
InterProi IPR029034. Cystine-knot_cytokine.
IPR023581. PD_growth_factor_CS.
IPR000072. PDGF/VEGF_dom.
[Graphical view ]
Pfami PF00341. PDGF. 1 hit.
[Graphical view ]
SMARTi SM00141. PDGF. 1 hit.
[Graphical view ]
SUPFAMi SSF57501. SSF57501. 1 hit.
PROSITEi PS00249. PDGF_1. 1 hit.
PS50278. PDGF_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning and characterization of a novel human gene related to vascular endothelial growth factor."
    Grimmond S., Lagercrantz J., Drinkwater C., Silins G., Townson S., Pollock P., Gotley D., Carson E., Rakar S., Nordenskjoeld M., Ward L., Hayward N.K., Weber G.
    Genome Res. 6:124-131(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS VEGF-B186 AND VEGF-B167).
    Tissue: Fetal brain.
  2. "Genomic organization of the mouse and human genes for vascular endothelial growth factor B (VEGF-B) and characterization of a second splice isoform."
    Olofsson B., Pajusola K., von Euler G., Chilov D., Alitalo K., Eriksson U.
    J. Biol. Chem. 271:19310-19317(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM VEGF-B186).
    Tissue: Fibrosarcoma.
  3. Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM VEGF-B167).
  4. "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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM VEGF-B186).
    Tissue: Tonsil.
  5. "Crystal structure of human vascular endothelial growth factor-B: identification of amino acids important for receptor binding."
    Iyer S., Scotney P.D., Nash A.D., Ravi Acharya K.
    J. Mol. Biol. 359:76-85(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.48 ANGSTROMS) OF 31-129, DISULFIDE BONDS, SUBUNIT.

Entry informationi

Entry nameiVEGFB_HUMAN
AccessioniPrimary (citable) accession number: P49765
Secondary accession number(s): Q16528
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: November 16, 2001
Last modified: September 3, 2014
This is version 130 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 11
    Human chromosome 11: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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