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Protein

Vascular endothelial growth factor D

Gene

VEGFD

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Growth factor active in angiogenesis, lymphangiogenesis and endothelial cell growth, stimulating their proliferation and migration and also has effects on the permeability of blood vessels. May function in the formation of the venous and lymphatic vascular systems during embryogenesis, and also in the maintenance of differentiated lymphatic endothelium in adults. Binds and activates VEGFR-2 (KDR/FLK1) and VEGFR-3 (FLT4) receptors.1 Publication

GO - Molecular functioni

  • chemoattractant activity Source: UniProtKB
  • growth factor activity Source: GO_Central
  • platelet-derived growth factor receptor binding Source: ProtInc
  • vascular endothelial growth factor receptor 3 binding Source: GO_Central
  • vascular endothelial growth factor receptor binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein, Growth factor, Mitogen

Keywords - Biological processi

Angiogenesis, Differentiation

Enzyme and pathway databases

BioCyciZFISH:ENSG00000165197-MONOMER.
BRENDAi3.4.21.46. 2681.
ReactomeiR-HSA-114608. Platelet degranulation.
R-HSA-194313. VEGF ligand-receptor interactions.
R-HSA-195399. VEGF binds to VEGFR leading to receptor dimerization.
SIGNORiO43915.

Names & Taxonomyi

Protein namesi
Recommended name:
Vascular endothelial growth factor DImported
Short name:
VEGF-D
Alternative name(s):
c-Fos-induced growth factor
Short name:
FIGF
Gene namesi
Name:VEGFDImported
Synonyms:FIGF
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome X

Organism-specific databases

HGNCiHGNC:3708. VEGFD.

Subcellular locationi

GO - Cellular componenti

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

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Organism-specific databases

DisGeNETi2277.
OpenTargetsiENSG00000165197.
PharmGKBiPA28146.

Polymorphism and mutation databases

BioMutaiFIGF.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 21Sequence analysisAdd BLAST21
PropeptideiPRO_000002340822 – 88Or 99 (in a minor form)1 PublicationAdd BLAST67
ChainiPRO_000002340989 – 205Vascular endothelial growth factor DAdd BLAST117
PropeptideiPRO_0000023410206 – 354Add BLAST149

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi111 ↔ 1531 Publication
Disulfide bondi136Interchain1 Publication
Disulfide bondi142 ↔ 1891 Publication
Disulfide bondi145Interchain1 Publication
Disulfide bondi146 ↔ 1911 Publication
Glycosylationi155N-linked (GlcNAc...)1 Publication1
Glycosylationi185N-linked (GlcNAc...)1 Publication1
Glycosylationi287N-linked (GlcNAc...)Sequence analysis1

Post-translational modificationi

Undergoes a complex proteolytic maturation which generates a variety of processed secreted forms with increased activity toward VEGFR-3 and VEGFR-2. VEGF-D first form an antiparallel homodimer linked by disulfide bonds before secretion. The fully processed VEGF-D is composed mostly of two VEGF homology domains (VHDs) bound by non-covalent interactions.1 Publication

Keywords - PTMi

Cleavage on pair of basic residues, Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiO43915.
PeptideAtlasiO43915.
PRIDEiO43915.

PTM databases

PhosphoSitePlusiO43915.

Expressioni

Tissue specificityi

Highly expressed in lung, heart, small intestine and fetal lung, and at lower levels in skeletal muscle, colon, and pancreas.

Gene expression databases

BgeeiENSG00000165197.
CleanExiHS_FIGF.
GenevisibleiO43915. HS.

Organism-specific databases

HPAiHPA027342.

Interactioni

Subunit structurei

Homodimer; non-covalent and antiparallel.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
VAMP3Q158364EBI-11750035,EBI-722343

GO - Molecular functioni

  • growth factor activity Source: GO_Central
  • platelet-derived growth factor receptor binding Source: ProtInc
  • vascular endothelial growth factor receptor 3 binding Source: GO_Central
  • vascular endothelial growth factor receptor binding Source: UniProtKB

Protein-protein interaction databases

BioGridi108567. 11 interactors.
IntActiO43915. 1 interactor.
STRINGi9606.ENSP00000297904.

Structurei

Secondary structure

1354
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi93 – 108Combined sources16
Beta strandi110 – 119Combined sources10
Helixi120 – 123Combined sources4
Helixi127 – 129Combined sources3
Beta strandi133 – 143Combined sources11
Beta strandi152 – 166Combined sources15
Beta strandi169 – 171Combined sources3
Beta strandi178 – 192Combined sources15

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2XV7X-ray2.90A92-195[»]
ProteinModelPortaliO43915.
SMRiO43915.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO43915.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati222 – 2371; approximateAdd BLAST16
Repeati258 – 2732Add BLAST16
Repeati277 – 2933Add BLAST17
Repeati301 – 3184Add BLAST18

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni222 – 3184 X 16 AA repeats of C-X(10)-C-X-C-X(1,3)-CAdd BLAST97

Sequence similaritiesi

Belongs to the PDGF/VEGF growth factor family.Curated

Keywords - Domaini

Repeat, Signal

Phylogenomic databases

eggNOGiENOG410IVDX. Eukaryota.
ENOG4111ICH. LUCA.
GeneTreeiENSGT00730000110889.
HOGENOMiHOG000231512.
HOVERGENiHBG073119.
InParanoidiO43915.
KOiK05449.
OMAiDTCSCED.
OrthoDBiEOG091G07BT.
PhylomeDBiO43915.
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]

Sequencei

Sequence statusi: Complete.

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

O43915-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MYREWVVVNV FMMLYVQLVQ GSSNEHGPVK RSSQSTLERS EQQIRAASSL
60 70 80 90 100
EELLRITHSE DWKLWRCRLR LKSFTSMDSR SASHRSTRFA ATFYDIETLK
110 120 130 140 150
VIDEEWQRTQ CSPRETCVEV ASELGKSTNT FFKPPCVNVF RCGGCCNEES
160 170 180 190 200
LICMNTSTSY ISKQLFEISV PLTSVPELVP VKVANHTGCK CLPTAPRHPY
210 220 230 240 250
SIIRRSIQIP EEDRCSHSKK LCPIDMLWDS NKCKCVLQEE NPLAGTEDHS
260 270 280 290 300
HLQEPALCGP HMMFDEDRCE CVCKTPCPKD LIQHPKNCSC FECKESLETC
310 320 330 340 350
CQKHKLFHPD TCSCEDRCPF HTRPCASGKT ACAKHCRFPK EKRAAQGPHS

RKNP
Length:354
Mass (Da):40,444
Last modified:June 1, 1998 - v1
Checksum:i2048D769D735173E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D89630 mRNA. Translation: BAA24264.1.
Y12863 mRNA. Translation: CAA73370.1.
Y12864
, Y12865, Y12866, Y12867, Y12868, Y12869, Y12870 Genomic DNA. Translation: CAA73371.1.
AJ000185 mRNA. Translation: CAA03942.1.
AK313173 mRNA. Translation: BAG35990.1.
CH471074 Genomic DNA. Translation: EAW98885.1.
BC027948 mRNA. Translation: AAH27948.1.
CCDSiCCDS14166.1.
RefSeqiNP_004460.1. NM_004469.4.
UniGeneiHs.11392.

Genome annotation databases

EnsembliENST00000297904; ENSP00000297904; ENSG00000165197.
GeneIDi2277.
KEGGihsa:2277.
UCSCiuc004cwt.3. human.

Cross-referencesi

Web resourcesi

Atlas of Genetics and Cytogenetics in Oncology and Haematology

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D89630 mRNA. Translation: BAA24264.1.
Y12863 mRNA. Translation: CAA73370.1.
Y12864
, Y12865, Y12866, Y12867, Y12868, Y12869, Y12870 Genomic DNA. Translation: CAA73371.1.
AJ000185 mRNA. Translation: CAA03942.1.
AK313173 mRNA. Translation: BAG35990.1.
CH471074 Genomic DNA. Translation: EAW98885.1.
BC027948 mRNA. Translation: AAH27948.1.
CCDSiCCDS14166.1.
RefSeqiNP_004460.1. NM_004469.4.
UniGeneiHs.11392.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2XV7X-ray2.90A92-195[»]
ProteinModelPortaliO43915.
SMRiO43915.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi108567. 11 interactors.
IntActiO43915. 1 interactor.
STRINGi9606.ENSP00000297904.

PTM databases

PhosphoSitePlusiO43915.

Polymorphism and mutation databases

BioMutaiFIGF.

Proteomic databases

PaxDbiO43915.
PeptideAtlasiO43915.
PRIDEiO43915.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000297904; ENSP00000297904; ENSG00000165197.
GeneIDi2277.
KEGGihsa:2277.
UCSCiuc004cwt.3. human.

Organism-specific databases

CTDi2277.
DisGeNETi2277.
GeneCardsiFIGF.
HGNCiHGNC:3708. VEGFD.
HPAiHPA027342.
MIMi300091. gene.
neXtProtiNX_O43915.
OpenTargetsiENSG00000165197.
PharmGKBiPA28146.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IVDX. Eukaryota.
ENOG4111ICH. LUCA.
GeneTreeiENSGT00730000110889.
HOGENOMiHOG000231512.
HOVERGENiHBG073119.
InParanoidiO43915.
KOiK05449.
OMAiDTCSCED.
OrthoDBiEOG091G07BT.
PhylomeDBiO43915.
TreeFamiTF319554.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000165197-MONOMER.
BRENDAi3.4.21.46. 2681.
ReactomeiR-HSA-114608. Platelet degranulation.
R-HSA-194313. VEGF ligand-receptor interactions.
R-HSA-195399. VEGF binds to VEGFR leading to receptor dimerization.
SIGNORiO43915.

Miscellaneous databases

ChiTaRSiFIGF. human.
EvolutionaryTraceiO43915.
GeneWikiiC-fos_induced_growth_factor.
GenomeRNAii2277.
PROiO43915.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000165197.
CleanExiHS_FIGF.
GenevisibleiO43915. 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 nameiVEGFD_HUMAN
AccessioniPrimary (citable) accession number: O43915
Secondary accession number(s): B2R7Z3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 16, 2001
Last sequence update: June 1, 1998
Last modified: November 30, 2016
This is version 145 of the entry and version 1 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, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome X
    Human chromosome X: 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.