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  • expression
  • The diphtheria toxin repressor (DtxR) regulates the expression of several iron-sensitive genes in Corynebacterium diphtheriae , including the iron-response protein genes ( irp ), a heme oxygenase, and the diphtheria toxin gene ( tox ) ( 1 - 3 ). (pnas.org)
  • Publications] Kawamoto S: 'Body Map : A collection of 3' ESTs for analysis of human gene expression information'Genome Res. (nii.ac.jp)
  • Expression of these domains in E. coli as GST-fusion proteins has allowed definition by nuclear magnetic resonance (NMR) of three-dimensional structures for the SH2 and SH3 domains. (royalsocietypublishing.org)
  • Co-expression of Pax6(S) with a Ca(2+) channel complex containing the beta(3) subunit in Xenopus oocytes does not affect channel properties. (genes2cognition.org)
  • Several previously described Fas ligand-interacting SH3 domain proteins turned out to be crucial for the regulation of storage, expression and function of the death factor. (genes2cognition.org)
  • Alternative splicing of the voltage-gated Ca2+ channel beta4 subunit creates a uniquely folded N-terminal protein binding domain with cell-specific expression in the cerebellar cortex. (genes2cognition.org)
  • Leptin also induced mRNA expression of the JAK-STAT inhibitor suppressor of cytokine signaling (SOCS)3 in INS-1 β-cells and human pancreatic islets in vitro and in pancreatic islets of ob/ob mice in vivo. (diabetesjournals.org)
  • Leptin has also been shown to inhibit insulin secretion and preproinsulin gene expression in pancreatic β-cells ( 3 - 6 ), thereby establishing an adipoinsular feedback loop in concert with stimulatory action of insulin on leptin secretion from the adipose tissue ( 7 , 8 ). (diabetesjournals.org)
  • The genes for SOCS-1 & -3 were cloned, sequences analyzed and expression patterns examined in the commercially-important teleost, yellow perch (Perca flavescens). (usda.gov)
  • To investigate sex-specific expression of the ypSOCS-1 and ypSOCS-3 mRNAs, juvenile male and female yellow perch were immunologically challenged with a single injection (10 micro grams/gram bw) of lipopolysaccharide (LPS) and tissues (gill, head kidney, kidney, liver and spleen) were sampled over a 48-hour time-course. (usda.gov)
  • structural
  • A limited number of mutations in the C-terminal domain ( 12 ) or the linker region ( 13 ) affect repressor activity, but the structural nature of this regulation by the C-terminal domain has been obscure. (pnas.org)
  • Epithelial and endothelial cells attach to each other by various occluding junctions which rely on the function of specific proteins characterized by common structural features, that is, one or more transmembrane domains flanked by cytoplasmic and extracellular portions. (hindawi.com)
  • ZO proteins carry some domains required for structural organization of intercellular junctions and additional domains capable of functioning in signal transduction pathways. (hindawi.com)
  • Our data suggest a possible functional and structural role of the PSD-95-GKAP complex in Shank and PSD protein assembly and stability to synapses. (jneurosci.org)
  • molecular
  • As measured by fluorescence recovery after photobleaching, F-BAR(2) displays faster molecular dynamics than F-BAR(3) and F-BAR(1) at the plasma membrane, which correlates well with its increased potency to induce filopodia. (biologists.org)
  • The structures of the human amphiphysin-1 SH3 domain complexed with 884 peptides were first modeled using virtual mutagenesis and optimized by molecular mechanics (MM) minimization. (genes2cognition.org)
  • While the molecular characteristics of Eps8 have been elucidated over the past few years, most functional studies of this protein were performed in fibroblasts or cancer cell lines. (biomedcentral.com)
  • The TLR family is a conserved component of the innate immune system that responds to specific pathogen-associated molecular pattern from viruses, bacteria, fungi, and parasites ( 2 , 3 ). (jimmunol.org)
  • However, the relative contributions of the different molecular mechanisms that underlie domain gains in animals are still unknown. (biomedcentral.com)
  • structures
  • BAR domains are membrane-binding modules, consisting of a series of three to five α-helices, that have a large dimerization interface to create banana-shaped quaternary structures. (biologists.org)
  • interplay
  • BAR-domain-containing proteins often contain multiple other domains, including the actin-binding domain WH2, GTPase-activating protein (GAP) and guanine-nucleotide-exchange factor (GEF) domains, and Src homology 3 (SH3) domains, leading to the interplay between cellular membranes and the actin cytoskeleton. (biologists.org)
  • More than 500 genes have been associated with different forms of autism, but each of them account only for the minority of ASD cases and indeed environmental contributions and other modulating factors, as environment-genetic interplay and epigenetic modifications, are emerging as potential risk factors for ASDs ( 3 ). (frontiersin.org)
  • respectively
  • Here, we demonstrate that the F-BAR domains of two closely related family members, srGAP1 and srGAP3 [designated F-BAR(1) and F-BAR(3), respectively] display significantly different membrane deformation properties in non-neuronal COS7 cells and in cortical neurons. (biologists.org)
  • Retroposition and insertion of exons into ancestral introns through intronic recombination are, in contrast to previous expectations, only minor contributors to domain gains and have accounted for less than 1% and 10% of high confidence domain gain events, respectively. (biomedcentral.com)
  • tail
  • The newly isolated isoform, named Pax6(S), retains the paired domain, linker, and homeodomain of Pax6, but its C terminus is composed of a truncated classic proline, serine, and threonine domain and a unique S tail. (genes2cognition.org)
  • neurons
  • F-BAR(3) induces filopodia in both cell types, though less potently than F-BAR(2), whereas F-BAR(1) prevents filopodia formation in cortical neurons and reduces plasma membrane dynamics. (biologists.org)
  • cytokine
  • The TLR adaptor molecule, Toll/IL-1R domain-containing adaptor inducing IFN (TRIF), facilitates TLR3 and TLR4 signaling and concomitant activation of the transcription factors, NF-κB and IFN regulatory factor 3, leading to proinflammatory cytokine production. (jimmunol.org)
  • kinase
  • In inside-out patches, the PKC-dependent enhancement of cation channel open probability could be prevented by the src homology 3 (SH3) domain, presumably by disrupting a link between the channel and the kinase. (jneurosci.org)
  • In this study, we systematically studied the evolutionary conservation of SLiMs recognized by SH2, SH3 and Ser/Thr Kinase domains in both ordered and disordered protein regions. (biomedcentral.com)
  • Possible clues to the function of PI 3-kinase derived from this and other observations are presented. (royalsocietypublishing.org)
  • ZO proteins belong to the large family of membrane-associated guanylate kinase (MAGUK)-like proteins comprising a number of subfamilies based on domain content and sequence similarity. (hindawi.com)
  • Leptin stimulation led to janus kinase (JAK)2-dependent phosphorylation and nuclear translocation of the transcription factors signal transducer and activator of transcription (STAT)3 and STAT5b in INS-1 β-cells. (diabetesjournals.org)
  • peptide
  • Binding of the proline-rich peptide by the C-terminal domain of DtxR presents an example of peptide binding by a prokaryotic Src homology 3-like protein. (pnas.org)
  • The demonstration of peptide binding by the C-terminal domain suggests a possible mechanism for regulating the activity of the intact repressor protein. (pnas.org)
  • Many important protein-protein interactions are mediated by peptide recognition modular domains, such as the Src homology 3 (SH3), SH2, PDZ, and WW domains. (genes2cognition.org)
  • We show a proof-of-concept study on the amphiphysin-1 SH3 domain interacting with its peptide ligands. (genes2cognition.org)
  • Our study demonstrates that the analysis of the MIECs between peptides and the SH3 domain can successfully characterize the binding interface, and it provides a framework to derive integrated prediction models for different domain-peptide systems. (genes2cognition.org)
  • Modeling and prediction of binding affinities between the human amphiphysin SH3 domain and its peptide ligands using genetic algorithm-Gaussian processes. (genes2cognition.org)
  • In this article, we discuss the application of the Gaussian process (GP) and other statistical methods (PLS, ANN, and SVM) for the modeling and prediction of binding affinities between the human amphiphysin SH3 domain and its peptide ligands. (genes2cognition.org)
  • iii) both SVM and GP have a good performance for SH3 domain binding peptide dataset. (genes2cognition.org)
  • amphiphysin
  • The partial least squares-genetic algorithm analysis on the MIECs revealed the critical interactions for the binding specificity of the amphiphysin-1 SH3 domain. (genes2cognition.org)
  • cellular
  • Interactions mediated by domains that appear in a large number of proteins are of particular interest since they are expected to have an impact on diversities of cellular processes such as signal transduction and immune response. (biomedcentral.com)
  • exhibit
  • Excitatory synapses in the brain exhibit a remarkable degree of functional plasticity, which largely reflects changes in the number of synaptic α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid receptors (AMPARs). (pnas.org)
  • regions
  • We find that, in all these domains examined, SLiMs are more conserved in disordered regions. (biomedcentral.com)
  • The two main types of recombination are non-allelic homologous recombination (NAHR) [ 8 , 17 ], which relies on short regions of homology, and illegitimate recombination (IR) [ 8 , 9 , 18 ], also known as non-homologous end joining, which does not require such homologous regions. (biomedcentral.com)
  • observations
  • We demonstrate the utility of this in vitro system in providing a direct functional link between in vivo and in vitro observations with DtxR and mutants of DtxR, which display subtle changes in activity in a manner not previously possible. (jove.com)
  • Growth
  • Thus, the SH3 domain of Myo5p contributes to but is not sufficient for localization of Myo5p either to patches or to sites of polarized cell growth. (rupress.org)
  • Binding
  • We show that AMPARs are localized to synapses through direct binding of the first two PDZ domains of synaptic PSD-95 (postsynaptic density protein of 95 kDa) to the AMPAR-associated protein, stargazin. (pnas.org)
  • Primary
  • In previous experiments, we and others have demonstrated that ObR isoforms, including ObRb, are expressed and functional in pancreatic β-cell lines and primary pancreatic islets ( 3 , 13 ). (diabetesjournals.org)
  • studies
  • The results of this study, combined with previous x-ray studies of intact DtxR, provide insights into a possible biological function of the C-terminal domain in regulating repressor activity. (pnas.org)