Gene Ontology annotation through association of InterPro records with GO terms
Annotation inferences using phylogenetic trees
WGEF is a novel RhoGEF expressed in intestine, liver, heart, and kidney.
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First description of the protein: a Dbl-family RhoGEF with a DH-PH tandem and a C-terminal SH3 domain, reported to activate RhoA, Cdc42 and Rac1 by pulldown, with forced expression rearranging the actin cytoskeleton.
"WGEF was shown to activate RhoA, Cdc42, and Rac1 by pulldown assay, and forced expression of WGEF resulted in marked rearrangement of the actin cytoskeleton"
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Expression is highest in intestine, with liver, heart and kidney also positive.
"WGEF was highly expressed in intestine and also in liver, heart and kidney"
WGEF activates Rho in the Wnt-PCP pathway and controls convergent extension in Xenopus gastrulation.
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Human WGEF raises RhoA-GTP in HEK293T cells, and a construct lacking most of the DH-PH module does not.
"Expression of hWGEF and XWGEF increased the level of active RhoA, whereas expression of hWGEFΔGEF did not"
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Neither human nor Xenopus WGEF activates Rac1 or Cdc42, under conditions where Ephexin-1 in the same experiment does.
"we find that hWGEF and XWGEF did not activate Rac or Cdc42 above control levels, whereas Ephexin did"
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Binding specificity mirrors exchange specificity: strong for RhoA, very weak for Rac1, absent for Cdc42.
"hWGEF but not XWGEF showed a very weak interaction with Rac-1, and neither WGEF bound to Cdc42"
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Dishevelled binds WGEF through its PDZ domain, and WGEF binds the N-terminal portion of Daam1 but not the C-terminal portion.
"These results indicate that Dvl interacts with WGEF through the PDZ domain."
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Loss of WGEF in human MCF-7 cells reduces Wnt-1-stimulated RhoA activation.
"depletion of WGEF with the aid of RNA interference (RNAi) attenuates Rho activation in response to Wnt-1"
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The N-terminal region is autoinhibitory; deleting it makes the protein hyperactive in RhoA binding, RhoA activation and embryonic phenotype.
"These results suggest that the N-terminal domain of WGEF has an autoinhibitory function, which may be released by Dvl binding."
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The Dishevelled-binding determinant was mapped by deletion to the N-terminal region, since constructs lacking residues 1-213 or comprising only DH-PH failed to bind.
"We found that hWGEFΔN and hWGEFDH–PH could not bind Dvl, whereas the other mutants tested, in particular the N-terminal domain itself, retained binding activity"
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Xenopus WGEF localises preferentially to the plasma membrane and colocalises with cortical actin.
"These results suggest that XWGEF is associated with the plasma membrane in the Xenopus embryo."
Role of the C-terminal SH3 domain and N-terminal tyrosine phosphorylation in regulation of Tim and related Dbl-family proteins.
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Wgef, like Ngef and Tim, is activated by tyrosine phosphorylation of an N-terminal helix that otherwise blocks the DH domain.
"Here we show that two other Dbl-family proteins, Ngef and Wgef, which like Tim contain a C-terminal SH3 domain, are also activated by tyrosine phosphorylation of a blocking helix."
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In the Tim subgroup, which includes Wgef, the C-terminal SH3 domain binds a polyproline region N-terminal to the DH domain, providing a second, independent autoinhibitory mode.
"we show that the C-terminal SH3 domain binding to a polyproline region N-terminal to the DH domain of the Tim subgroup of Dbl-family proteins provides a unique mechanism of regulated autoinhibition of exchange activity"
Epigenetic regulation of adipocyte differentiation by a Rho guanine nucleotide exchange factor, WGEF.
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CpG sites in exon 1 of WGEF are demethylated during 3T3-L1 adipogenesis, and the region regulates WGEF transcription.
"Hpa II sites of exon 1 in a Rho guanine nucleotide exchange factor 19 (ARHGEF19; WGEF) gene were demethylated during adipocyte differentiation of 3T3-L1 cells"
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Forced WGEF expression suppresses the adipogenic programme.
"forced expression of WGEF in 3T3-L1 cells down-regulated the expression of adipogenic marker genes and inhibited the adipogenic program"
Epidermal wound repair is regulated by the planar cell polarity signaling pathway.
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RhoGEF19 is a direct transcriptional target of GRHL3, identified by phylogenetic analysis, chromatin immunoprecipitation and expression analysis in Grhl3-null mice.
"we identified RhoGEF19, a homolog of a RhoA activator involved in PCP signaling in Xenopus, as a direct target of GRHL3"
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Knockdown of RhoGEF19 in keratinocytes phenocopies Grhl3 knockdown for actin polymerisation, cell polarity and wound healing, and re-expression of RhoGEF19 rescues the Grhl3 knockdown.
"Knockdown of Grhl3 or RhoGEF19 in keratinocytes induced defects in actin polymerization, cellular polarity, and wound healing, and re-expression of RhoGEF19 rescued these defects in Grhl3-kd cells"
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The keratinocytes are human. RhoGEF19 was knocked down by shRNA in the human line HaCaT, and the leading-edge polarity analysis is described as being done on human cells.
"we utilized the shRNA lentivirus to target the RhoGEF19 transcript in the human keratinocyte cell line, HaCAT"
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RhoGEF19-knockdown human keratinocytes fail to close a scratch wound that control cells close completely, and activated RhoA falls in those cells.
"unlike the Scr cells, which migrated to completely close the scratch within 24 hours"
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Re-expressing RhoGEF19 in Grhl3-knockdown human keratinocytes restores wound closure from 10% to 73%, placing RhoGEF19 downstream of GRHL3 in the same human cells.
"re-expression of RhoGEF19 substantially rescued the wound healing phenotype observed with the Grhl3-kd cells (10% closure versus 73%)"
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RhoGEF19-knockdown human keratinocytes form only rudimentary, misdirected stress fibres at the wound edge.
"RhoGEF19-kd cells formed only rudimentary stress fibers that showed irregular organization and were not directed towards the scratched area"
Involvement of p114-RhoGEF and Lfc in Wnt-3a- and dishevelled-induced RhoA activation and neurite retraction in N1E-115 mouse neuroblastoma cells.
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In N1E-115 mouse neuroblastoma cells, WGEF knockdown has no effect on Dishevelled-induced neurite retraction, while p114-RhoGEF and Lfc knockdowns do; the authors conclude WGEF is not the relevant GEF in this context.
"WGEF shRNA had no apparent effect on Dvl-induced neurite retraction in N1E-115 cells"
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The WGEF shRNA was shown to be effective in the same cells, so the negative result is not a knockdown failure.
"the shRNA targeting WGEF effectively suppressed the expression of HA-WGEF"
Grhl3 and GEF19 in the front rho.
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Commentary from the authors of PMID:20643356 framing GRHL3-driven transcription of RhoGEF19 as tissue-specific control of Rho GTPase activity in wound repair.
"the recently described regulation of RhoGEF19, an activator of RhoA, by the epidermal-specific transcription factor GRHL3"
Pronephric tubulogenesis requires Daam1-mediated planar cell polarity signaling.
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The developing pronephric anlagen expresses Daam1 together with WGEF, and inhibiting this branch of the planar-cell-polarity pathway reduces pronephric tubulogenesis in Xenopus and zebrafish.
"the developing pronephric anlagen expresses Daam1 and its interacting Rho-GEF (WGEF), which compose one PCP/noncanonical Wnt pathway branch"
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Tubulogenesis requires the Daam1/WGEF/Rho branch specifically.
"These data indicate that pronephric tubulogenesis requires the Daam1/WGEF/Rho PCP pathway."
miR-503 regulates metastatic function through Rho guanine nucleotide exchanger factor 19 in hepatocellular carcinoma.
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ARHGEF19 is a direct target of miR-503 in hepatocellular carcinoma cells, and its overexpression counteracts miR-503-mediated suppression of proliferation and metastasis.
"we demonstrated that ARHGEF19 is a direct target gene of miR-503"
Wnt signaling in midbrain dopaminergic neuron development and regenerative medicine for Parkinson's disease.
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A review of Wnt signalling in midbrain dopaminergic neurons, cited by ParkinsonsUK-UCL as the author-statement source for placing ARHGEF19 in the planar-cell-polarity pathway. The cached record is abstract only and the abstract does not mention ARHGEF19 or planar cell polarity, so the supporting statement is in full text that was not accessible here.
ARHGEF19 interacts with BRAF to activate MAPK signaling during the tumorigenesis of non-small cell lung cancer.
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ARHGEF19 activates MEK1/2 phosphorylation independently of RhoA, through an interaction with BRAF that requires both the DH and the PH domain.
"ARHGEF19 interacted with BRAF and facilitated the phosphorylation of its downstream kinase MEK1/2; both the Dbl homology (DH) and Pleckstrin homology (PH) domains of ARHGEF19 were indispensable for the phosphorylation of MEK1/2"
Emerging Roles of Ephexins in Physiology and Disease.
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Ephexin-2 is the least studied member of the family, and no Eph receptor interacting with it has been identified.
"Studies on Ephexin2 have not extensively been done compared with Ephexin1."
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The Ephexin family is defined by homology, and for Ephexin-2 specifically no Eph receptor partner is known.
"although an Eph receptor interacting with Ephexin2 has not been identified"
Divergent roles of the Wnt/PCP Formin Daam1 in renal ciliogenesis.
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Knockdown of ArhGEF19 in MDCKII cells causes loss of primary cilia, as does knockdown of its partner Daam1; knockdown in Xenopus kidney does not reproduce the effect.
"Additionally, the Daam1 partner, ArhGEF19, is also required for proper cilia formation in MDCKII cells."
A reference map of the human binary protein interactome.
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A proteome-scale binary interaction map, HuRI, which is the source of the reported ARHGEF19-PAK5 interaction.
"With approximately 53,000 protein-protein interactions, HuRI has approximately four times as many such interactions as there are high-quality curated interactions from small-scale studies."
ARHGEF19 regulates MAPK/ERK signaling and promotes the progression of small cell lung cancer.
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In small-cell lung cancer cells and xenografts, the DH and PH domains of ARHGEF19 interact with HRAS and activate MAPK/ERK signalling.
"ARHGEF19-DH and -PD domain interacts with HRAS and activates the MAPK/ERK pathway in SCLC cells and SCLC xenografts."
Double inhibition and activation mechanisms of Ephexin family RhoGEFs.
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Ephexin-family RhoGEFs are held inactive by two independent modules, an N-terminal inhibitory helix and a C-terminal SH3-mediated mode, each relieved separately.
"This double inhibition mechanism is commonly employed by other Ephexins and SGEF, another RhoGEF for RhoG."
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Phosphorylation of a conserved tyrosine in the N-terminal inhibitory domain and binding of PDZ proteins to a C-terminal PDZ-binding motif relieve the two brakes independently in Ephexin-4.
"phosphorylation of a conserved tyrosine residue in its N-terminal inhibitory domain and association of PDZ proteins with its C-terminal PDZ-binding motif may respectively relieve the two autoinhibitory modes in Ephexin4"
ARHGEF19 promotes the growth of breast cancer in vitro and in vivo by the MAPK pathway.
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ARHGEF19 is overexpressed in human breast cancer, promotes proliferation and suppresses apoptosis, and activates the MAPK pathway.
"we found that ARHGEF19 could activate the MAPK pathway in breast cancer cells"
Dishevelled2 activates WGEF via its interaction with a unique internal peptide motif of the GEF.
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Dvl2-PDZ binding to an internal motif at residues 349-359 of human WGEF relieves autoinhibition and raises exchange activity.
"whereas the motif identified by us is present between amino acid residues 349–359 of hWGEF"
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This mapping contradicts the earlier assignment of Dishevelled binding to the N-terminal 1-213, and the authors say so explicitly.
"This observation is contrary to the previous study in which the Dvl2PDZ binding was mapped towards the N-terminus of hWGEF"
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The exchange assays were performed on Xenopus rather than human protein because the human constructs were insoluble or poorly expressed.
"Since some of these hWGEF constructs were found to be insoluble and/or poorly expressed in E. coli, we used WGEF from Xenopus laevis (xWGEF) as a surrogate system for further studies."
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The conserved N-terminal inhibitory tyrosine of human WGEF is Y295; the phosphomimetic Y295E is reported to be autoinhibition-free.
"This particular tyrosine (Y353xWGEF/295hWGEF) of hWGEF is present in NID and locks the GEF by interacting with its DH domain."
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Neither crystallisation route produced a WGEF peptide-Dvl2PDZ complex structure, including the fusion construct deposited as PDB 8YR7.
"Even this approach failed to produce the WGEFpep–Dvl2PDZ complex structure (PDB ID: 8YR7)"
ANKK1 Is a Wnt/PCP Scaffold Protein for Neural F-ACTIN Assembly.
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ANKK1 binds WGEF in human SH-SY5Y cells, confirmed by co-immunoprecipitation and proximity ligation, and the WGEF-RhoA interaction increases when ANKK1 is knocked down.
"Co-IP and PLA experiments confirmed ANKK1–WGEF interaction"
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In differentiated cells both ANKK1 and WGEF localise to neurites, although they colocalise poorly.
"Although both proteins localize to neurites, colocalization was low"
p75NTR indirectly activates RAC and Cdc42 via a guanyl-nucleotide exchange factor
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A reaction whose catalyst is an undifferentiated cytosolic GEF set and whose output is RAC1-GTP; ARHGEF19 participates only by membership of that set.
"Following NGF binding, p75NTR activates the RAC (Ras-related C3 botulinum toxin substrate) GTPase."
GEFs activate RhoA,B,C
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Generic statement that Rho-family GEFs catalyse GDP-GTP exchange, noting that some GEFs are GTPase-specific and others broad.
"Guanine nucleotide exchange factors (GEFs) activate GTPases by enhancing the exchange of bound GDP for GTP."
RHOA GEFs activate RHOA
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Reactome lists ARHGEF19 as a RHOA GEF set member on the evidence of Wang et al. 2004 and Muller et al. 2020.
"The following guanine nucleotide exchange factors (GEFs) were shown to bind RHOA and catalyze GDP to GTP exchange on RHOA"
PANTHER PTHR12845 PAINT (IBD) annotations
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The wound-healing IBD sits on a Euteleostomi-level node seeded by exactly one gene product, mouse Arhgef19.
"PTHR12845 PTN002656130 GO:0042060 P IBD false MGI:MGI:1925912 taxon:117571"
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The actin-cytoskeleton IBD is seeded at the eukaryote root by three gene products, one of which is ARHGEF19 itself.
"PTHR12845 PTN002656129 GO:0032956 P IBD false UniProtKB:O94989|UniProtKB:Q12774|UniProtKB:Q8IW93 taxon:2759"
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The guanyl-nucleotide-exchange IBD is also at the eukaryote root, seeded entirely by mammalian ephexins.
"PTHR12845 PTN002656129 GO:0005085 F IBD false MGI:MGI:3045246|UniProtKB:O94989|UniProtKB:Q12774|UniProtKB:Q5VV41|UniProtKB:Q8N5V2 taxon:2759"
Affinage mechanistic annotation for ARHGEF19 (human)
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Affinage's own GO grounding for this gene places it at the plasma membrane and the cilium, and assigns only high-level molecular-function terms.
"GO:0005886 plasma membrane, GO:0005929 cilium"
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The narrative correctly records the published negative result, noting that the Wnt/Dvl-induced RhoA activation role is dispensable in N1E-115 cells.
"it is dispensable in N1E-115 cells where other RhoGEFs predominate"
ARHGEF19 bioinformatics: DH-PH exchange-surface panel and GO literature coverage
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ARHGEF19 presents a complete Dbl-family exchange surface, spanning 24 of the 25 DH positions that contact RhoA in both solved RhoA complexes - the same coverage as the weakest verified-active comparator in the panel.
"24 of the 25 RhoA-contacting positions are present"
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The same analysis cannot assign a substrate: identity at the exchange surface is 36% for ARHGEF19 against LARG and 36% for Tiam1, a GEF for a different GTPase.
"Identity at the exchange surface is 36% for ARHGEF19 against LARG"
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A Pfam DH hit is not evidence of exchange competence: ARHGEF19 isoform 2 clears the gathering threshold at 65.5 bits despite losing half the DH domain plus all of PH and SH3, spanning only 5 of the 25 contact positions.
"still clears the Pfam gathering threshold"
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Eleven of fourteen primary experimental papers on ARHGEF19 have produced no GO annotation of any gene in any species, and twelve of fourteen have produced none on ARHGEF19 itself.
"11 have produced no GO annotation of any gene in any species."