Human Gene VAV3 (ENST00000370056.9_7) from GENCODE V47lift37
  Description: vav guanine nucleotide exchange factor 3, transcript variant 1 (from RefSeq NM_006113.5)
Gencode Transcript: ENST00000370056.9_7
Gencode Gene: ENSG00000134215.16_10
Transcript (Including UTRs)
   Position: hg19 chr1:108,113,783-108,507,802 Size: 394,020 Total Exon Count: 27 Strand: -
Coding Region
   Position: hg19 chr1:108,115,953-108,507,491 Size: 391,539 Coding Exon Count: 27 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:108,113,783-108,507,802)mRNA (may differ from genome)Protein (847 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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-  Comments and Description Text from UniProtKB
  ID: VAV3_HUMAN
DESCRIPTION: RecName: Full=Guanine nucleotide exchange factor VAV3; Short=VAV-3;
FUNCTION: Exchange factor for GTP-binding proteins RhoA, RhoG and, to a lesser extent, Rac1. Binds physically to the nucleotide-free states of those GTPases. Plays an important role in angiogenesis. Its recruitment by phosphorylated EPHA2 is critical for EFNA1- induced RAC1 GTPase activation and vascular endothelial cell migration and assembly (By similarity). May be important for integrin-mediated signaling, at least in some cell types. In osteoclasts, along with SYK tyrosine kinase, required for signaling through integrin alpha-v/beta-1 (ITAGV-ITGB1), a crucial event for osteoclast proper cytoskeleton organization and function. This signaling pathway involves RAC1, but not RHO, activation. Necessary for proper wound healing. In the course of wound healing, required for the phagocytotic cup formation preceding macrophage phagocytosis of apoptotic neutrophils. Responsible for integrin beta-2 (ITGB2)-mediated macrophage adhesion and, to a lesser extent, contributes to beta-3 (ITGB3)- mediated adhesion. Does not affect integrin beta-1 (ITGB1)- mediated adhesion (By similarity).
SUBUNIT: Interacts with the PH domain of APS. Interacts (via SH2 domains) with the phosphorylated form of EPHA2. Interacts with ROS1; constitutive interaction that mediates VAV3 phosphorylation.
INTERACTION: P62993:GRB2; NbExp=5; IntAct=EBI-297568, EBI-401755;
TISSUE SPECIFICITY: Isoform 1 and isoform 3 are widely expressed; both are expressed at very low levels in skeletal muscle. In keratinocytes, isoform 1 is less abundant than isoform 3. Isoform 3 is detected at very low levels, if any, in adrenal gland, bone marrow, spleen, fetal brain and spinal chord; in these tissues, isoform 1 is readily detectable.
INDUCTION: Down-regulated by EGF and TGF-beta.
PTM: Phosphorylated. Phosphorylation can be mediated by ROS1. In osteoclasts, undergoes tyrosine phosphorylation in response to CSF1 (By similarity).
SIMILARITY: Contains 1 CH (calponin-homology) domain.
SIMILARITY: Contains 1 DH (DBL-homology) domain.
SIMILARITY: Contains 1 PH domain.
SIMILARITY: Contains 1 phorbol-ester/DAG-type zinc finger.
SIMILARITY: Contains 1 SH2 domain.
SIMILARITY: Contains 2 SH3 domains.
SEQUENCE CAUTION: Sequence=AAD03799.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: VAV3
Diseases sorted by gene-association score: glaucoma, normal tension (11)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D001564 Benzo(a)pyrene
  • D008727 Methotrexate
  • D013749 Tetrachlorodibenzodioxin
  • C059514 resveratrol
  • C548651 2-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester
  • C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine
  • D016604 Aflatoxin B1
  • D017638 Asbestos, Crocidolite
  • D001966 Bromine
  • D002117 Calcitriol
          more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 20.61 RPKM in Skin - Not Sun Exposed (Suprapubic)
Total median expression: 146.68 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -201.30311-0.647 Picture PostScript Text
3' UTR -577.402170-0.266 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001715 - CH-domain
IPR000219 - DH-domain
IPR001331 - GDS_CDC24_CS
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology
IPR002219 - Prot_Kinase_C-like_PE/DAG-bd
IPR000980 - SH2
IPR011511 - SH3_2
IPR001452 - SH3_domain
IPR003096 - SM22_calponin

Pfam Domains:
PF00017 - SH2 domain
PF00018 - SH3 domain
PF00130 - Phorbol esters/diacylglycerol binding domain (C1 domain)
PF00169 - PH domain
PF00307 - Calponin homology (CH) domain
PF00621 - RhoGEF domain
PF06395 - CDC24 Calponin
PF07653 - Variant SH3 domain
PF11971 - CAMSAP CH domain
PF14604 - Variant SH3 domain

SCOP Domains:
47576 - Calponin-homology domain, CH-domain
48065 - DBL homology domain (DH-domain)
81296 - E set domains
50044 - SH3-domain
50729 - PH domain-like
55550 - SH2 domain
57889 - Cysteine-rich domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2D86 - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q9UKW4
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005070 SH3/SH2 adaptor activity
GO:0005085 guanyl-nucleotide exchange factor activity
GO:0005089 Rho guanyl-nucleotide exchange factor activity
GO:0005096 GTPase activator activity
GO:0005154 epidermal growth factor receptor binding
GO:0005515 protein binding
GO:0030676 Rac guanyl-nucleotide exchange factor activity
GO:0046872 metal ion binding

Biological Process:
GO:0001525 angiogenesis
GO:0006906 vesicle fusion
GO:0006974 cellular response to DNA damage stimulus
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007229 integrin-mediated signaling pathway
GO:0007264 small GTPase mediated signal transduction
GO:0008361 regulation of cell size
GO:0009967 positive regulation of signal transduction
GO:0016477 cell migration
GO:0030031 cell projection assembly
GO:0030032 lamellipodium assembly
GO:0030168 platelet activation
GO:0030593 neutrophil chemotaxis
GO:0030890 positive regulation of B cell proliferation
GO:0035023 regulation of Rho protein signal transduction
GO:0035556 intracellular signal transduction
GO:0038095 Fc-epsilon receptor signaling pathway
GO:0038096 Fc-gamma receptor signaling pathway involved in phagocytosis
GO:0042493 response to drug
GO:0043065 positive regulation of apoptotic process
GO:0043087 regulation of GTPase activity
GO:0043547 positive regulation of GTPase activity
GO:0043552 positive regulation of phosphatidylinositol 3-kinase activity
GO:0045785 positive regulation of cell adhesion
GO:0048010 vascular endothelial growth factor receptor signaling pathway
GO:0048013 ephrin receptor signaling pathway
GO:0050853 B cell receptor signaling pathway
GO:0051056 regulation of small GTPase mediated signal transduction

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane


-  Descriptions from all associated GenBank mRNAs
  LQ264956 - Sequence 2 from Patent WO2016066604.
LQ264955 - Sequence 1 from Patent WO2016066604.
AF067817 - Homo sapiens VAV-3 protein mRNA, complete cds.
AF118887 - Homo sapiens VAV-3 protein (VAV-3) mRNA, alternatively spliced, complete cds.
BC143969 - Homo sapiens vav 3 guanine nucleotide exchange factor, mRNA (cDNA clone MGC:177504 IMAGE:9052487), complete cds.
AK300474 - Homo sapiens cDNA FLJ54061 complete cds, highly similar to Protein vav-3.
AK304088 - Homo sapiens cDNA FLJ54045 complete cds, highly similar to Protein vav-3.
AK296537 - Homo sapiens cDNA FLJ52556 complete cds, highly similar to Protein vav-3.
AK316295 - Homo sapiens cDNA, FLJ79194 complete cds, highly similar to Protein vav-3.
AF118886 - Homo sapiens VAV-3 protein beta isoform (VAV-3) mRNA, alternatively spliced, complete cds.
BC156726 - Synthetic construct Homo sapiens clone IMAGE:100062223, MGC:190209 vav 3 guanine nucleotide exchange factor (VAV3) mRNA, encodes complete protein.
BC146365 - Synthetic construct Homo sapiens clone IMAGE:100015251, MGC:180267 vav 3 guanine nucleotide exchange factor (VAV3) mRNA, encodes complete protein.
AB527273 - Synthetic construct DNA, clone: pF1KB3264, Homo sapiens VAV3 gene for vav 3 guanine nucleotide exchange factor, without stop codon, in Flexi system.
AK097750 - Homo sapiens cDNA FLJ40431 fis, clone TESTI2039225, highly similar to Homo sapiens VAV-3 protein mRNA.
AK295166 - Homo sapiens cDNA FLJ60542 complete cds, highly similar to Protein vav-3.
JD488774 - Sequence 469798 from Patent EP1572962.
JD521378 - Sequence 502402 from Patent EP1572962.
JD215809 - Sequence 196833 from Patent EP1572962.
JD393785 - Sequence 374809 from Patent EP1572962.
JD220219 - Sequence 201243 from Patent EP1572962.
JD171482 - Sequence 152506 from Patent EP1572962.
JD304464 - Sequence 285488 from Patent EP1572962.
JD117886 - Sequence 98910 from Patent EP1572962.
JD301162 - Sequence 282186 from Patent EP1572962.
JD327868 - Sequence 308892 from Patent EP1572962.
JD214887 - Sequence 195911 from Patent EP1572962.
JD450758 - Sequence 431782 from Patent EP1572962.
HZ473930 - WO 2016002844-A/44: ANTI-INVASIVE/ANTI-METASTATIC DRUG FOR PANCREATIC CANCER CELL.
JD509536 - Sequence 490560 from Patent EP1572962.
JD502462 - Sequence 483486 from Patent EP1572962.
JD375822 - Sequence 356846 from Patent EP1572962.
JD250521 - Sequence 231545 from Patent EP1572962.
JD280206 - Sequence 261230 from Patent EP1572962.
JD504262 - Sequence 485286 from Patent EP1572962.
JD039618 - Sequence 20642 from Patent EP1572962.
JD053627 - Sequence 34651 from Patent EP1572962.
JD375488 - Sequence 356512 from Patent EP1572962.
JD105440 - Sequence 86464 from Patent EP1572962.
JD281762 - Sequence 262786 from Patent EP1572962.
JD159951 - Sequence 140975 from Patent EP1572962.
JD284495 - Sequence 265519 from Patent EP1572962.
JD193747 - Sequence 174771 from Patent EP1572962.
HZ473929 - WO 2016002844-A/43: ANTI-INVASIVE/ANTI-METASTATIC DRUG FOR PANCREATIC CANCER CELL.
JD357441 - Sequence 338465 from Patent EP1572962.
AF035442 - Homo sapiens VAV-like protein mRNA, partial cds.
HZ473928 - WO 2016002844-A/42: ANTI-INVASIVE/ANTI-METASTATIC DRUG FOR PANCREATIC CANCER CELL.
HZ473927 - WO 2016002844-A/41: ANTI-INVASIVE/ANTI-METASTATIC DRUG FOR PANCREATIC CANCER CELL.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9UKW4 (Reactome details) participates in the following event(s):

R-HSA-430158 p-SLP-76 binds VAV
R-HSA-434637 PIP3 binds stimulating VAV
R-HSA-2029458 Recruitment of VAV1 to p-6Y-SYK
R-HSA-2730892 Recruitment of VAV to p-SLP-76
R-HSA-2424481 Recruitment of VAV and BTK to p-SLP-76
R-HSA-3928607 p-EPHs bind VAV2,3
R-HSA-434633 PIP2 binds inhibiting VAV
R-HSA-437932 p-Y348-SYK binds VAV family
R-HSA-442314 VAV3 is a GEF for Rho/Rac family kinases
R-HSA-194913 GEFs activate Rho GTPase:GDP
R-HSA-419166 GEFs activate RhoA,B,C
R-HSA-205039 p75NTR indirectly activates RAC and Cdc42 via a guanyl-nucleotide exchange factor
R-HSA-2029453 Phosphorylation of VAV
R-HSA-2730888 Phosphorylation of PLC-gamma
R-HSA-2730858 Autophosphorylation of BTK/ITK
R-HSA-2730841 Phosphorylation and activation of VAV
R-HSA-2730885 Recruitment of TEC kinases to p-SLP-76
R-HSA-2730833 Phosphorylation of TEC kinases by p-SYK
R-HSA-5218820 Src kinases phosphorylate VAV
R-HSA-2424487 Phosphorylation of PLC-gamma by p-BTK/p-SYK
R-HSA-2424484 Phosphorylation of BTK by p-SYK
R-HSA-2424485 Release of p-PLCG1
R-HSA-2424486 Phosphorylation and activation of VAV2/VAV3 by SYK
R-HSA-3928604 SFKs phosphorylate VAV2,3
R-HSA-437936 p-Y348-SYK phosphorylates VAV family
R-HSA-2730840 Activation of RAC1 by VAV
R-HSA-2730889 Recruitment of PAK to the membrane by binding active RAC1
R-HSA-2730856 Autophosphorylation of PAK
R-HSA-8951586 p-VAV family:PIP3 binds RAC1:GDP
R-HSA-2730847 Hydrolysis of PIP2 by PLCG
R-HSA-2029451 Activation of RAC1 by VAV
R-HSA-5357483 RAC1 binds PAK1-3
R-HSA-5218850 VAV exchanges GTP for GDP on RAC1, activating it
R-HSA-5357472 PAK1-3 autophosphorylates
R-HSA-2424476 Activation of RAC1 by VAV2/3
R-HSA-3928628 VAV exchanges GTP for GDP on RAC1, activating it
R-HSA-5357445 PAK1-3 dimer disassociates
R-HSA-114604 GPVI-mediated activation cascade
R-HSA-4420097 VEGFA-VEGFR2 Pathway
R-HSA-2029482 Regulation of actin dynamics for phagocytic cup formation
R-HSA-2871796 FCERI mediated MAPK activation
R-HSA-2424491 DAP12 signaling
R-HSA-3928665 EPH-ephrin mediated repulsion of cells
R-HSA-194840 Rho GTPase cycle
R-HSA-416482 G alpha (12/13) signalling events
R-HSA-193648 NRAGE signals death through JNK
R-HSA-2871809 FCERI mediated Ca+2 mobilization
R-HSA-76002 Platelet activation, signaling and aggregation
R-HSA-194138 Signaling by VEGF
R-HSA-2029480 Fcgamma receptor (FCGR) dependent phagocytosis
R-HSA-2454202 Fc epsilon receptor (FCERI) signaling
R-HSA-2172127 DAP12 interactions
R-HSA-2682334 EPH-Ephrin signaling
R-HSA-194315 Signaling by Rho GTPases
R-HSA-388396 GPCR downstream signalling
R-HSA-204998 Cell death signalling via NRAGE, NRIF and NADE
R-HSA-109582 Hemostasis
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-168249 Innate Immune System
R-HSA-422475 Axon guidance
R-HSA-5218920 VEGFR2 mediated vascular permeability
R-HSA-162582 Signal Transduction
R-HSA-372790 Signaling by GPCR
R-HSA-193704 p75 NTR receptor-mediated signalling
R-HSA-168256 Immune System
R-HSA-1266738 Developmental Biology
R-HSA-73887 Death Receptor Signalling

-  Other Names for This Gene
  Alternate Gene Symbols: B1AMM0, B1APV5, B4E232, B7ZLR1, E9PQ97, ENST00000370056.1, ENST00000370056.2, ENST00000370056.3, ENST00000370056.4, ENST00000370056.5, ENST00000370056.6, ENST00000370056.7, ENST00000370056.8, NM_006113, O60498, O95230, Q9UKW4, Q9Y5X8, uc318ibh.1, uc318ibh.2, VAV3_HUMAN
UCSC ID: ENST00000370056.9_7
RefSeq Accession: NM_006113.5
Protein: Q9UKW4 (aka VAV3_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.