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Protein

Vascular endothelial growth factor B

Gene

VEGFB

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: 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

  • chemoattractant activity Source: UniProtKB
  • growth factor activity Source: GO_Central
  • heparin binding Source: UniProtKB-KW
  • vascular endothelial growth factor receptor 1 binding Source: UniProtKB

GO - Biological processi

  • angiogenesis Source: Ensembl
  • cardiac muscle contraction Source: Ensembl
  • coronary vasculature development Source: Ensembl
  • induction of positive chemotaxis Source: UniProtKB
  • negative regulation of apoptotic process Source: UniProtKB
  • negative regulation of gene expression Source: UniProtKB
  • negative regulation of neuron apoptotic process Source: UniProtKB
  • platelet degranulation Source: Reactome
  • positive regulation of cell division Source: UniProtKB-KW
  • positive regulation of endothelial cell proliferation Source: UniProtKB
  • positive regulation of ERK1 and ERK2 cascade Source: UniProtKB
  • positive regulation of mast cell chemotaxis Source: UniProtKB
  • positive regulation of peptidyl-tyrosine phosphorylation Source: UniProtKB
  • positive regulation of protein kinase B signaling Source: UniProtKB
  • positive regulation of vascular endothelial growth factor receptor signaling pathway Source: UniProtKB
  • positive regulation of vascular wound healing Source: UniProtKB
  • protein O-linked glycosylation Source: Ensembl
  • response to drug Source: Ensembl
  • response to hypoxia Source: GO_Central
  • 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

BioCyciZFISH:ENSG00000173511-MONOMER.
ReactomeiR-HSA-114608. Platelet degranulation.
R-HSA-194313. VEGF ligand-receptor interactions.
R-HSA-195399. 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
Proteomesi
  • UP000005640 Componenti: 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

  • extracellular region Source: Reactome
  • extracellular space Source: UniProtKB
  • membrane Source: InterPro
  • platelet alpha granule lumen Source: Reactome
Complete GO annotation...

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Organism-specific databases

DisGeNETi7423.
OpenTargetsiENSG00000173511.
PharmGKBiPA37303.

Chemistry databases

DrugBankiDB08885. Aflibercept.

Polymorphism and mutation databases

BioMutaiVEGFB.
DMDMi17380554.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 21Sequence analysisAdd BLAST21
ChainiPRO_000002339822 – 207Vascular endothelial growth factor BAdd BLAST186

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi47 ↔ 891 Publication
Disulfide bondi72Interchain1 Publication
Disulfide bondi78 ↔ 1221 Publication
Disulfide bondi81Interchain1 Publication
Disulfide bondi82 ↔ 1241 Publication

Post-translational modificationi

VEGF-B186 is O-glycosylated.By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiP49765.
PeptideAtlasiP49765.
PRIDEiP49765.

PTM databases

PhosphoSitePlusiP49765.

Expressioni

Tissue specificityi

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

Gene expression databases

BgeeiENSG00000173511.
CleanExiHS_VEGFB.
ExpressionAtlasiP49765. baseline and differential.
GenevisibleiP49765. HS.

Organism-specific databases

HPAiCAB025499.

Interactioni

Subunit structurei

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

GO - Molecular functioni

Protein-protein interaction databases

BioGridi113266. 13 interactors.
DIPiDIP-6045N.
IntActiP49765. 3 interactors.
STRINGi9606.ENSP00000311127.

Structurei

Secondary structure

1207
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Turni33 – 35Combined sources3
Helixi38 – 45Combined sources8
Beta strandi46 – 55Combined sources10
Turni58 – 60Combined sources3
Beta strandi61 – 64Combined sources4
Beta strandi66 – 81Combined sources16
Beta strandi83 – 86Combined sources4
Beta strandi88 – 105Combined sources18
Beta strandi108 – 125Combined sources18

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2C7WX-ray2.48A/B31-129[»]
2VWEX-ray3.40A/B22-196[»]
2XACX-ray2.71A/B31-129[»]
ProteinModelPortaliP49765.
SMRiP49765.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP49765.

Family & Domainsi

Sequence similaritiesi

Belongs to the PDGF/VEGF growth factor family.Curated

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG410II0A. Eukaryota.
ENOG410ZN1X. LUCA.
GeneTreeiENSGT00730000110791.
HOGENOMiHOG000230896.
HOVERGENiHBG000105.
InParanoidiP49765.
KOiK16858.
OMAiTMELMGT.
OrthoDBiEOG091G0G6M.
PhylomeDBiP49765.
TreeFamiTF319554.

Family and domain databases

CDDicd00135. PDGF. 1 hit.
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. AlignAdd to basket

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

        10         20         30         40         50
MSPLLRRLLL AALLQLAPAQ APVSQPDAPG HQRKVVSWID VYTRATCQPR
60 70 80 90 100
EVVVPLTVEL MGTVAKQLVP SCVTVQRCGG CCPDDGLECV PTGQHQVRMQ
110 120 130 140 150
ILMIRYPSSQ LGEMSLEEHS QCECRPKKKD SAVKPDRAAT PHHRPQPRSV
160 170 180 190 200
PGWDSAPGAP SPADITHPTP APGPSAHAAP STTSALTPGP AAAAADAAAS

SVAKGGA
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)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_004639137 – 188RAATP…SALTP → SPRPLCPRCTQHHQRPDPRT CRCRCRRRSFLRCQGRGLEL NPDTCRCRKLRR in isoform VEGF-B167. 2 PublicationsAdd BLAST52
Alternative sequenceiVSP_004640189 – 207Missing in isoform VEGF-B167. 2 PublicationsAdd BLAST19

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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.
UCSCiuc001nyx.4. human. [P49765-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2C7WX-ray2.48A/B31-129[»]
2VWEX-ray3.40A/B22-196[»]
2XACX-ray2.71A/B31-129[»]
ProteinModelPortaliP49765.
SMRiP49765.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi113266. 13 interactors.
DIPiDIP-6045N.
IntActiP49765. 3 interactors.
STRINGi9606.ENSP00000311127.

Chemistry databases

DrugBankiDB08885. Aflibercept.

PTM databases

PhosphoSitePlusiP49765.

Polymorphism and mutation databases

BioMutaiVEGFB.
DMDMi17380554.

Proteomic databases

PaxDbiP49765.
PeptideAtlasiP49765.
PRIDEiP49765.

Protocols and materials databases

DNASUi7423.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000309422; ENSP00000311127; ENSG00000173511. [P49765-1]
ENST00000426086; ENSP00000401550; ENSG00000173511. [P49765-2]
GeneIDi7423.
KEGGihsa:7423.
UCSCiuc001nyx.4. human. [P49765-1]

Organism-specific databases

CTDi7423.
DisGeNETi7423.
GeneCardsiVEGFB.
HGNCiHGNC:12681. VEGFB.
HPAiCAB025499.
MIMi601398. gene.
neXtProtiNX_P49765.
OpenTargetsiENSG00000173511.
PharmGKBiPA37303.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410II0A. Eukaryota.
ENOG410ZN1X. LUCA.
GeneTreeiENSGT00730000110791.
HOGENOMiHOG000230896.
HOVERGENiHBG000105.
InParanoidiP49765.
KOiK16858.
OMAiTMELMGT.
OrthoDBiEOG091G0G6M.
PhylomeDBiP49765.
TreeFamiTF319554.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000173511-MONOMER.
ReactomeiR-HSA-114608. Platelet degranulation.
R-HSA-194313. VEGF ligand-receptor interactions.
R-HSA-195399. VEGF binds to VEGFR leading to receptor dimerization.
SignaLinkiP49765.

Miscellaneous databases

ChiTaRSiVEGFB. human.
EvolutionaryTraceiP49765.
GeneWikiiVascular_endothelial_growth_factor_B.
GenomeRNAii7423.
PROiP49765.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000173511.
CleanExiHS_VEGFB.
ExpressionAtlasiP49765. baseline and differential.
GenevisibleiP49765. HS.

Family and domain databases

CDDicd00135. PDGF. 1 hit.
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]
ProtoNetiSearch...

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: November 30, 2016
This is version 149 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.