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P49765

- VEGFB_HUMAN

UniProt

P49765 - VEGFB_HUMAN

Protein

Vascular endothelial growth factor B

Gene

VEGFB

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 131 (01 Oct 2014)
      Sequence version 2 (16 Nov 2001)
      Previous versions | rss
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    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 cell division Source: UniProtKB-KW
    13. positive regulation of endothelial cell proliferation Source: UniProtKB
    14. positive regulation of ERK1 and ERK2 cascade 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

    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

    Keywords - Cellular componenti

    Secreted

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA37303.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2121Sequence AnalysisAdd
    BLAST
    Chaini22 – 207186Vascular endothelial growth factor BPRO_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. 2 interactions.
    STRINGi9606.ENSP00000311127.

    Structurei

    Secondary structure

    1
    207
    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.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP49765.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the PDGF/VEGF growth factor family.Curated

    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. 2 PublicationsVSP_004639Add
    BLAST
    Alternative sequencei189 – 20719Missing in isoform VEGF-B167. 2 PublicationsVSP_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

    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. 2 interactions.
    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

    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

    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: October 1, 2014
    This is version 131 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