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Protein

Vascular endothelial growth factor B

Gene

Vegfb

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript 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 (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Growth factor, Mitogen

Keywords - Ligandi

Heparin-binding

Enzyme and pathway databases

ReactomeiR-RNO-114608. Platelet degranulation.
R-RNO-194313. VEGF ligand-receptor interactions.
R-RNO-195399. VEGF binds to VEGFR leading to receptor dimerization.

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
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 1

Organism-specific databases

RGDi619799. Vegfb.

Subcellular locationi

  • Secreted By similarity

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

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2121Sequence analysisAdd
BLAST
Chaini22 – 207186Vascular endothelial growth factor BPRO_0000045174Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi72 – 72InterchainBy similarity
Disulfide bondi78 ↔ 122By similarity
Disulfide bondi81 – 81InterchainBy similarity
Disulfide bondi82 ↔ 124By similarity

Keywords - PTMi

Disulfide bond

Proteomic databases

PaxDbiO35485.

PTM databases

iPTMnetiO35485.

Interactioni

Subunit structurei

Homodimer; disulfide-linked. Can also form heterodimer with VEGF (By similarity).By similarity

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000049757.

Structurei

3D structure databases

ProteinModelPortaliO35485.
SMRiO35485. Positions 34-128.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the PDGF/VEGF growth factor family.Curated

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG410II0A. Eukaryota.
ENOG410ZN1X. LUCA.
GeneTreeiENSGT00730000110791.
HOVERGENiHBG000105.
InParanoidiO35485.
KOiK16858.
OMAiLECVPIG.
OrthoDBiEOG74R1S0.
PhylomeDBiO35485.
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. AlignAdd to basket

Note: Additional isoforms seem to exist.

Isoform VEGF-B186 (identifier: O35485-1) [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 VALLQLACTQ APVSQFDGPS HQKKVVSWID VYARATCQPR
60 70 80 90 100
EVVVPLSMEL MGNVVKQLVP SCVTVQRCGG CCPDDGLECV PIGQHQVRMQ
110 120 130 140 150
ILMIQYPSSQ LGEMSLEEHS QCECRPKRKE SAVKPDRVAI PHHRPQPRSV
160 170 180 190 200
LSWDSAPGAS SPADIIHPTP APGPSAHAAP SAVSALIPGP AVAAADAAAS

SIAKGGA
Length:207
Mass (Da):21,869
Last modified:December 20, 2005 - v3
Checksum:i1A7F7DC4F8D0C9E2
GO
Isoform VEGF-B167 (identifier: O35485-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     137-207: RVAIPHHRPQ...AASSIAKGGA → SPRTLCPRCT...NPDTCRSSET

Show »
Length:186
Mass (Da):21,102
Checksum:iCC76A0CDC97E9427
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti32 – 332QK → KR in AAB95447 (Ref. 3) Curated
Sequence conflicti60 – 601L → F in AAB95447 (Ref. 3) Curated
Sequence conflicti68 – 681L → F in AAB95447 (Ref. 3) Curated
Sequence conflicti129 – 1291K → R in AAB86884 (Ref. 4) Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei137 – 20771RVAIP…AKGGA → SPRTLCPRCTQRRQRPDPRT CRCRCRRRRFLHCQGRGLEL NPDTCRSSET in isoform VEGF-B167. 2 PublicationsVSP_016662Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AABR03002421 Genomic DNA. No translation available.
BC076395 mRNA. Translation: AAH76395.1.
AF022952 mRNA. Translation: AAB95447.1.
AF032925 mRNA. Translation: AAB86884.1.
RefSeqiNP_446001.1. NM_053549.1. [O35485-2]
XP_006230972.1. XM_006230910.2. [O35485-1]
XP_006230973.1. XM_006230911.2. [O35485-1]
UniGeneiRn.198550.

Genome annotation databases

EnsembliENSRNOT00000050891; ENSRNOP00000049757; ENSRNOG00000021156. [O35485-2]
GeneIDi89811.
KEGGirno:89811.
UCSCiRGD:619799. rat. [O35485-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AABR03002421 Genomic DNA. No translation available.
BC076395 mRNA. Translation: AAH76395.1.
AF022952 mRNA. Translation: AAB95447.1.
AF032925 mRNA. Translation: AAB86884.1.
RefSeqiNP_446001.1. NM_053549.1. [O35485-2]
XP_006230972.1. XM_006230910.2. [O35485-1]
XP_006230973.1. XM_006230911.2. [O35485-1]
UniGeneiRn.198550.

3D structure databases

ProteinModelPortaliO35485.
SMRiO35485. Positions 34-128.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000049757.

PTM databases

iPTMnetiO35485.

Proteomic databases

PaxDbiO35485.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000050891; ENSRNOP00000049757; ENSRNOG00000021156. [O35485-2]
GeneIDi89811.
KEGGirno:89811.
UCSCiRGD:619799. rat. [O35485-1]

Organism-specific databases

CTDi7423.
RGDi619799. Vegfb.

Phylogenomic databases

eggNOGiENOG410II0A. Eukaryota.
ENOG410ZN1X. LUCA.
GeneTreeiENSGT00730000110791.
HOVERGENiHBG000105.
InParanoidiO35485.
KOiK16858.
OMAiLECVPIG.
OrthoDBiEOG74R1S0.
PhylomeDBiO35485.
TreeFamiTF319554.

Enzyme and pathway databases

ReactomeiR-RNO-114608. Platelet degranulation.
R-RNO-194313. VEGF ligand-receptor interactions.
R-RNO-195399. VEGF binds to VEGFR leading to receptor dimerization.

Miscellaneous databases

PROiO35485.

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]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Genome sequence of the Brown Norway rat yields insights into mammalian evolution."
    Gibbs R.A., Weinstock G.M., Metzker M.L., Muzny D.M., Sodergren E.J., Scherer S., Scott G., Steffen D., Worley K.C., Burch P.E., Okwuonu G., Hines S., Lewis L., Deramo C., Delgado O., Dugan-Rocha S., Miner G., Morgan M.
    , Hawes A., Gill R., Holt R.A., Adams M.D., Amanatides P.G., Baden-Tillson H., Barnstead M., Chin S., Evans C.A., Ferriera S., Fosler C., Glodek A., Gu Z., Jennings D., Kraft C.L., Nguyen T., Pfannkoch C.M., Sitter C., Sutton G.G., Venter J.C., Woodage T., Smith D., Lee H.-M., Gustafson E., Cahill P., Kana A., Doucette-Stamm L., Weinstock K., Fechtel K., Weiss R.B., Dunn D.M., Green E.D., Blakesley R.W., Bouffard G.G., De Jong P.J., Osoegawa K., Zhu B., Marra M., Schein J., Bosdet I., Fjell C., Jones S., Krzywinski M., Mathewson C., Siddiqui A., Wye N., McPherson J., Zhao S., Fraser C.M., Shetty J., Shatsman S., Geer K., Chen Y., Abramzon S., Nierman W.C., Havlak P.H., Chen R., Durbin K.J., Egan A., Ren Y., Song X.-Z., Li B., Liu Y., Qin X., Cawley S., Cooney A.J., D'Souza L.M., Martin K., Wu J.Q., Gonzalez-Garay M.L., Jackson A.R., Kalafus K.J., McLeod M.P., Milosavljevic A., Virk D., Volkov A., Wheeler D.A., Zhang Z., Bailey J.A., Eichler E.E., Tuzun E., Birney E., Mongin E., Ureta-Vidal A., Woodwark C., Zdobnov E., Bork P., Suyama M., Torrents D., Alexandersson M., Trask B.J., Young J.M., Huang H., Wang H., Xing H., Daniels S., Gietzen D., Schmidt J., Stevens K., Vitt U., Wingrove J., Camara F., Mar Alba M., Abril J.F., Guigo R., Smit A., Dubchak I., Rubin E.M., Couronne O., Poliakov A., Huebner N., Ganten D., Goesele C., Hummel O., Kreitler T., Lee Y.-A., Monti J., Schulz H., Zimdahl H., Himmelbauer H., Lehrach H., Jacob H.J., Bromberg S., Gullings-Handley J., Jensen-Seaman M.I., Kwitek A.E., Lazar J., Pasko D., Tonellato P.J., Twigger S., Ponting C.P., Duarte J.M., Rice S., Goodstadt L., Beatson S.A., Emes R.D., Winter E.E., Webber C., Brandt P., Nyakatura G., Adetobi M., Chiaromonte F., Elnitski L., Eswara P., Hardison R.C., Hou M., Kolbe D., Makova K., Miller W., Nekrutenko A., Riemer C., Schwartz S., Taylor J., Yang S., Zhang Y., Lindpaintner K., Andrews T.D., Caccamo M., Clamp M., Clarke L., Curwen V., Durbin R.M., Eyras E., Searle S.M., Cooper G.M., Batzoglou S., Brudno M., Sidow A., Stone E.A., Payseur B.A., Bourque G., Lopez-Otin C., Puente X.S., Chakrabarti K., Chatterji S., Dewey C., Pachter L., Bray N., Yap V.B., Caspi A., Tesler G., Pevzner P.A., Haussler D., Roskin K.M., Baertsch R., Clawson H., Furey T.S., Hinrichs A.S., Karolchik D., Kent W.J., Rosenbloom K.R., Trumbower H., Weirauch M., Cooper D.N., Stenson P.D., Ma B., Brent M., Arumugam M., Shteynberg D., Copley R.R., Taylor M.S., Riethman H., Mudunuri U., Peterson J., Guyer M., Felsenfeld A., Old S., Mockrin S., Collins F.S.
    Nature 428:493-521(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Brown Norway.
  2. "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-B167).
    Tissue: Kidney.
  3. "Isolation and characterization of rat vascular endothelial growth factor B (VEGF-B)."
    Weil J., Eschenhagen T., Mittmann C., Scholz H.
    Submitted (AUG-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 32-181 (ISOFORM VEGF-B167).
    Tissue: Heart.
  4. Mandriota S.J., Pepper M.S.
    Submitted (NOV-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 51-186 (ISOFORM VEGF-B186).
    Strain: Sprague-Dawley.
    Tissue: Placenta.

Entry informationi

Entry nameiVEGFB_RAT
AccessioniPrimary (citable) accession number: O35485
Secondary accession number(s): O54881, Q6DGF3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 16, 2001
Last sequence update: December 20, 2005
Last modified: June 8, 2016
This is version 108 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.