Solution conformations of beta-methyl-para-nitrophenylalanine4 analogues of the potent delta-opioid peptide cyclo[D-Pen2, D-Pen5]enkephalin (DPDPE) were studied by combined use of nmr and conformational energy calculations. Nuclear Overhauser effect connectivities and 3JHNC alpha H coupling constants measured for the (2S, 3S)-, (2S, 3R)-, and (2R, 3R)-stereoisomers of [beta-Me-p-NO2Phe4]DPDPE in DMSO were compared with low energy conformers obtained by energy minimization in the Empirical Conformational Energy Program for Peptides (ECEPP/2) force field. The conformers that satisfied all available nmr data were selected as probable solution conformations of these peptides. Side-chain rotamer populations, established using homonuclear (3JH alpha H beta) and heteronuclear (3JH alpha C gamma) coupling constants and 13C chemical shifts, show that the beta-methyl substituent eliminates one of the three staggered rotamers of the torsion angle chi 1 for each stereoisomer of the beta-Me-p-NO2Phe4. Similar solution conformations were suggested for the L-Phe4-containing (2S, 3S)- and (2S, 3R)-stereoisomers. Despite some local differences, solution conformations of L- and D-Phe4-containing analogues have a common shape of the peptide backbone and allow similar orientations of the main delta-opioid pharmacophores. This type of structure differs from several models of the solution conformations of DPDPE, and from the model of biologically active conformations of DPDPE suggested earlier. The latter model is allowed for the potent (2S, 3S)- and (2S, 3R)-stereoisomers of [beta-Me-p-NO2Phe4]DPDPE, but it is forbidden for the less active (2R, 3R)- and (2R, 3S)-stereoisomers. It was concluded that the biologically active stereoisomers of [beta-Me-p-NO2Phe4]DPDPE in the delta-receptor-bound state may assume a conformation different from their favorable conformations in DMSO.
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http://dx.doi.org/10.1002/(sici)1097-0282(199602)38:2<141::aid-bip2>3.0.co;2-v | DOI Listing |
Langmuir
January 2025
Department of Chemical Engineering, Technion-IIT, Haifa 32000, Israel.
A comprehensive approach enabling a quantitative interpretation of poly-l-arginine (PARG) adsorption kinetics at solid/electrolyte interfaces was developed. The first step involved all-atom molecular dynamics (MD) modeling of physicochemical characteristics yielding PARG molecule conformations, its contour length, and the cross-section area. It was also shown that PARG molecules, even in concentrated electrolyte solutions (100 mM NaCl), assume a largely elongated shape with an aspect ratio of 36.
View Article and Find Full Text PDFChemistry
January 2025
Beijing University of Posts and Telecommunications, School of Science, Beijing, CHINA.
Cofacial electron donor-acceptor dyads exhibiting through-space charge-transfer (TSCT) characteristics are widely employed in the development of optoelectronic functional materials. The flexible molecular frameworks between the electron donor and acceptor components allow dynamic modulation of electronic coupling, influenced by excited-state structural relaxation or intermolecular interactions, thereby affecting the charge-transfer (CT) dynamics and the emission properties of TSCT states. In this work, we examine the TSCT dynamic processes of two electron donor-acceptor dyads, CzPhNI and CzPhPI formed by ortho-substitution of phenyl linkage with V-shaped flexible TSCT structures using carbazole as donor and naphthalimide or phthalimide as acceptor.
View Article and Find Full Text PDFUnlabelled: Vitamin B (cobalamin) is a high-value yet scarce cofactor required for various metabolic processes, making its efficient handling important for maintaining metabolic homeostasis. While the involvement of ATP:cob(I)alamin adenosyltransferases (MMAB) in the synthesis, delivery, and repair of 5'-deoxyadenosylcobalamin (AdoCbl) is well established, the kinetic mechanisms that regulate this process, particularly its negative cooperativity, remain poorly understood. Understanding these mechanisms is key to clarifying how MMAB efficiently uses AdoCbl, prevents resource wastage, and supports bacterial survival in nutrient-limited environments.
View Article and Find Full Text PDFACS Omega
January 2025
CIMUS Biomedical Research Institute & Department of Medical Sciences, University of Santiago de Compostela-IDIS, Santiago de Compostela 15782, Spain.
Scrapie is a prion disease of sheep and goats. Prions (PrP) replicate by inducing a natively expressed protein (PrP) to refold into the prion conformation. PrP and PrP contain a disproportionately large number of methionines.
View Article and Find Full Text PDFPharmacol Ther
January 2025
Aix-Marseille University, INSERM UA 16, Faculty of Medicine, 13015 Marseille, France.
The traditional model of protein structure determined by the amino acid sequence is today seriously challenged by the fact that approximately half of the human proteome is made up of proteins that do not have a stable 3D structure, either partially or in totality. These proteins, called intrinsically disordered proteins (IDPs), are involved in numerous physiological functions and are associated with severe pathologies, e.g.
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