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Interaction of the BELL-like protein ATH1 with DNA: Role of homeodomain residue 54 in specifying the different binding properties of BELL and KNOX proteins
(De Gruyter, 2006-01)
We have studied the interaction of the BELL-like Arabidopsis homeodomain protein ATH1 with DNA. Analysis of oligonucleotides selected by the ATH1 homeodomain from a random mixture suggests that ATH1 preferentially binds ...
Relevance of the protein macrodipole in the membrane-binding process. Interactions of fatty-acid binding proteins with cationic lipid membranes
(Public Library of Science, 2018-03)
The fatty acid-binding proteins L-BABP and Rep1-NCXSQ bind to anionic lipid membranes by electrostatic interactions. According to Molecular Dynamics (MD) simulations, the interaction of the protein macrodipole with the ...
Uncoupling the Folding and Binding of an Intrinsically Disordered Protein
(Academic Press Ltd - Elsevier Science Ltd, 2018-08)
The relationship between helical stability and binding affinity was examined for the intrinsically disordered transactivation domain of the myeloblastosis oncoprotein, c-Myb, and its ordered binding partner, KIX. A series ...
Identifying trypanosome protein-RNA interactions using RIP-Seq
(Humana Press, 2020)
Trypanosomatids rely primarily on post-transcriptional mechanisms for the control of gene expression, with regulation of RNA processing, localization, degradation and translation by RNA-binding proteins (RBPs). To determine ...
Equilibrium mono- and multicomponent adsorption models: From homogeneous ideal to heterogeneous non-ideal binding
(Elsevier Science, 2020-06)
Aqueous sorption processes play an important role in, for example, pollutant binding to natural nanoparticles, colloid stability, separation and enrichment of components and remediation processes. In this article, which ...
Phage-Display-Derived Peptide Binds to Human CD206 and Modeling Reveals a New Binding Site on the Receptor
(American Chemical Society, 2019-03)
We recently identified a tumor-homing peptide (mUNO, sequence: "CSPGAK") that specifically interacts with mouse CD206 to target CD206/MRC1-expressing tumor-associated macrophages in mice. Here, we report studies on the ...
The key role of electrostatic interactions in the induced folding in RNA recognition by DCL1-A
(Royal Society of Chemistry, 2018-03)
The intrinsically disordered protein domain DCL1-A is the first report of a complete double stranded RNA binding domain folding upon binding. DCL1-A recognizes the dsRNA by acquiring a well-folded structure after engagement ...
A thermodynamic analysis of the binding specificity between four human pdz domains and eight host, viral and designed ligands
(MDPI AG, 2021-08)
PDZ domains are binding modules mostly involved in cell signaling and cell–cell junctions. These domains are able to recognize a wide variety of natural targets and, among the PDZ partners, viruses have been discovered to ...
Renaissance of Allostery to Disrupt Protein Kinase Interactions
(Elsevier Science London, 2019-11)
Protein–protein interactions often regulate the activity of protein kinases by allosterically modulating the conformation of the ATP-binding site. Bidirectional allostery implies that reverse modulation (i.e., from the ...
Critical role of the solvent environment in galectin-1 binding to the disaccharide lactose
(American Chemical Society, 2009-12)
Galectin-1 (Gal-1), a member of a family of evolutionarily conserved glycan-binding proteins, binds specifically to poly-N-acetyllactosamine-enriched glycoconjugates. Through interactions with these glycoconjugates, this ...