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Gotowe bibliografie tematyczne / Pseudopeptidic molecules

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Gotowa bibliografia na temat „Pseudopeptidic molecules”

Autor: Grafiati

Data publikacji: 6 września 2023

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Artykuły w czasopismach na temat "Pseudopeptidic molecules"

1

Alfonso, Ignacio. "From simplicity to complex systems with bioinspired pseudopeptides". Chemical Communications 52, nr 2 (2016): 239–50. http://dx.doi.org/10.1039/c5cc07596c.

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This feature article highlights some of the recent advances in creating complexity from simple pseudopeptidic molecules. The bioinspired approaches discussed here allowed an increase in the structural, chemical and interactional complexity (see figure).

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Bijesh, M. B., N. U. Dheepthi, Appa Rao Sapala, Ashutosh Shandilya, Kedar Khare i V. Haridas. "Chiral and non-chiral assemblies from lipidated serine-based pseudopeptidic molecules". Molecular Systems Design & Engineering 1, nr 2 (2016): 163–68. http://dx.doi.org/10.1039/c6me00009f.

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Through various examples, we demonstrated serine as an excellent building block for the design of chiral and non-chiral self-assembled materials. The fine parameters such as pitch, angle and helicity can be altered using clever molecular engineering.

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Ostankovitch, Marina, Gilles Guichard, Francine Connan, Sylviane Muller, Aude Chaboissier, Johan Hoebeke, Jeannine Choppin, Jean-Paul Briand i Jean-Gérard Guillet. "A Partially Modified Retro-Inverso Pseudopeptide Modulates the Cytokine Profile of CTL Specific for an Influenza Virus Epitope". Journal of Immunology 161, nr 1 (1.07.1998): 200–208. http://dx.doi.org/10.4049/jimmunol.161.1.200.

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Abstract There is considerable evidence that peptides corresponding to MHC class I-restricted epitopes can be used as immunogens or immunomodulators. Pseudopeptides containing isosteric replacements of the amide bond provide more stable analogues, which may even have enhanced biologic activity. But there have been very few studies on the use of pseudopeptides to initiate or modulate the cellular immune response. This study describes the immunogenicity of a partially modified retro-inverso pseudopeptide of an influenza virus epitope and shows that this pseudopeptide modulates the cytokine profile expressed by CD8+CTL generated from primed precursors. Moreover, the pseudopeptide is much more efficient at low concentration than the wild-type epitope to stimulate IFN-γ secretion by CD8+ T effector cells. These results are analyzed with reference to changes in the conformation of the MHC molecule/peptide complex deduced from molecular modeling. The findings support the idea that partially modified retro-inverso analogues can be used as altered peptide ligands to enhance the stimulation of natural epitope-specific CTL and to modify their functional properties. Hence, pseudopeptide ligands might be promising tools for use in immunotherapy.

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Faggi, Enrico, Santiago V. Luis i Ignacio Alfonso. "Minimalistic amino amides as models to study N–H⋯π interactions and their implication in the side chain folding of pseudopeptidic molecules". RSC Advances 3, nr 29 (2013): 11556. http://dx.doi.org/10.1039/c3ra41843j.

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Mehrazma, Banafsheh, Anahit Petoyan, Stanley K. A. Opare i Arvi Rauk. "Interaction of the N-AcAβ(13–23)NH2 segment of the beta amyloid peptide with beta-sheet-blocking peptides: site and edge specificity". Canadian Journal of Chemistry 94, nr 6 (czerwiec 2016): 583–92. http://dx.doi.org/10.1139/cjc-2016-0033.

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The region encompassing residues 13–23 of the amyloid beta peptide (Aβ(13–23)) of Alzheimer’s disease is the self-recognition site that initiates toxic oligomerization and fibrillization and also is the site of interaction of Aβ with many other proteins. We describe herein a study by molecular dynamics of the complexes formed by R (= N-AcAβ(13–23)NH2(N-CH3C(O)HHQKLVFFAEDNH2)) with several pseudopeptides designed to form β-sheets with Aβ(1-40,42) and prevent oligomer and fibril formation. Adhesion to both edges of the R β-strand is examined by structure analysis. Umbrella sampling along a dissociation pathway reveals approximate free energies of binding in the submicromolar range. One of the three pseudopeptides binds strongly to one edge of the R β-strand and another to the opposite edge, while the third displays strong binding to both edges. It is desirable to block both edges of the self-recognition site of Aβ to prevent oligomer formation. The study reveals that this may be accomplished by a single pseudopeptide or two in combination. Thus the pseudopeptides, used singly or in pairs, may be competitive inhibitors of Aβ oligomerization at stoichiometric concentrations.

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Esteve, Ferran, Alexis Villanueva-Antolí, Belén Altava, Eduardo García-Verdugo i Santiago V. Luis. "Unravelling the Supramolecular Driving Forces in the Formation of CO2-Responsive Pseudopeptidic Low-Molecular-Weight Hydrogelators". Gels 8, nr 6 (20.06.2022): 390. http://dx.doi.org/10.3390/gels8060390.

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A new family of C2-symmetric pseudopeptides with a high functional density for supramolecular interactions has been synthetized through the attachment of four amino acid subunits to a diamino aliphatic spacer. The resulting open-chain compounds present remarkable properties as low-molecular-weight hydrogelators. The self-assembled 3D networks were characterized by SEM analyses, observing regular nanofibres with 80–100 nm diameters. Spectroscopic and molecular modelling experiments revealed the presence of strong synergic effects between the H-bonding and π–π interactions, with the best results obtained for the homoleptic tetra-pseudopeptide derived from l-Phe. In addition, these bioinspired hydrogels possessed pH- and CO2-responsive sol–gel transitions. The formation of ammonium carbamate derivatives in the presence of carbon dioxide led to a detrimental change in its adequate self-assembly. CO2 desorption temperatures of ca. 70 °C were assigned to the thermodynamically favoured recovery of the supramolecular gel.

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7

Dharmashekar, Chandan, Bhargav Shreevatsa, Anisha S. Jain, Bhavana Harendra, Sushma Pradeep, Prashanth M. Vishwanath, Pranav Singh i in. "Evaluating the Antimicrobial and Anti-Hemolytic Activity of Synthesized Pseudopeptide against Leptospiral Species: In Silico and In Vitro Approach". Molecules 28, nr 3 (22.01.2023): 1106. http://dx.doi.org/10.3390/molecules28031106.

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Bacterial infections are one of the leading causes of morbidity, mortality, and healthcare complications in patients. Leptospirosis is found to be the most prevalent, re-emergent, and neglected tropical zoonotic disease worldwide. The adaptation to various environmental conditions has made Leptospira acquire a large genome (~4.6 Mb) and a complex outer membrane, making it unique among bacteria that mimic the symptoms of jaundice and hemorrhage. Sph2 is another important virulence factor that enhances hemolytic sphingomyelinase—capable of moving inside mitochondria—which increases the ROS level and decreases the mitochondrial membrane potential, thereby leading to cell apoptosis. In the present study, 25 suspected bovine serum samples were subjected to the Microscopic Agglutination Test (MAT) across the Mysuru region. Different samples, such as urine, serum, and aborted materials from the confirmed MAT-positive animals, were used for isolation and genomic detection by conventional PCR targeting virulence gene, Lipl32, using specific primers. Further, in vitro and in silico studies were performed on isolated cultures to assess the anti-leptospiral, anti-hemolytic, and sphingomyelinase enzyme inhibition using novel pseudopeptides. The microdilution technique (MDT) and dark field microscope (DFM) assays revealed that at a concentration of 62.5 μg/mL, the pseudopeptide inhibited 100% of the growth of Leptospira spp., suggesting its efficiency in the treatment of leptospirosis. The flow cytometry analyses show the potency of the pseudopeptide against sphingomyelinase enzymes using human umbilical vein endothelial cells (HUVECs). Thus, the present study demonstrated the efficacy of the pseudopeptide in the inhibition of the growth of Leptospira, and therefore, this can be used as an alternative drug for the treatment of leptospirosis.

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Calbo, Sébastien, Gilles Guichard, Philippe Bousso, Sylviane Muller, Philippe Kourilsky, Jean-Paul Briand i Jean-Pierre Abastado. "Role of Peptide Backbone in T Cell Recognition". Journal of Immunology 162, nr 8 (15.04.1999): 4657–62. http://dx.doi.org/10.4049/jimmunol.162.8.4657.

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Abstract T cells recognize self and nonself peptides presented by molecules of the MHC. Amino acid substitutions in the antigenic peptide showed that T cell specificity is highly degenerate. Recently, determination of the crystal structure of several TCR/MHC-peptide complexes suggested that the peptide backbone may significantly contribute to the interaction with the TCR. To directly investigate the role of the peptide backbone in T cell recognition, we performed a methylene-amino scan on the backbone of an antigenic peptide and measured the capacity of such pseudopeptides to bind their cognate MHC molecule, to sensitize target cells for T cell lysis, and to stimulate IL-2 secretion by two T cell hybridomas. For one of these pseudopeptides, we prepared fluorescent tetramers of MHC molecules and compared the staining of two T cell hybridomas. Our results demonstrate that the peptide backbone has an important contribution to TCR binding and suggest that some interactions between the peptide backbone and the TCR may be partially conserved. We discuss this finding in the perspective of TCR plasticity and T cell function.

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9

Amini, Zohreh, Mohammad Hossein Fatemi i Arvi Rauk. "Molecular dynamics studies of a β-sheet blocking peptide with the full-length amyloid beta peptide of Alzheimer’s disease". Canadian Journal of Chemistry 94, nr 10 (październik 2016): 833–41. http://dx.doi.org/10.1139/cjc-2016-0267.

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The region encompassing residues 13–23 of the amyloid beta peptide (Aβ(13–23)) of Alzheimer’s disease is the self-recognition site that initiates toxic oligomerization and fibrillization. A number of pseudopeptides have been designed to bind to Aβ(13–23) and been computationally shown to do so with high affinity. More interactions are available in full-length Aβ than are available in the shorter peptide. We describe herein a study by molecular dynamics (MD) of nine distinct complexes formed by one such pseudopeptide, SGA1, with full-length beta amyloid, Aβ(1–42). The relative stabilities of the Aβ–SGA1 complexes were estimated by a combination of MD and ab initio methods. The most stable complex, designated AB1, was found to be one in which SGA1 is bound to the self-recognition site of Aβ(1–42) in an antiparallel β-sheet fashion. Another complex, designated AB3, also involved SGA1 binding to the self-recognition region of Aβ(1–42), albeit with lower affinity. In both AB1 and AB3, SGA1 formed antiparallel β-sheets but to opposite edges of Aβ. A complex, AB4, with similar stability to AB3, was found with a parallel β-sheet in the self-recognition site. A fourth complex, AB7, also with similar stability, formed a parallel β-sheet in the hydrophobic central region of Aβ. In all cases, complexation of SGA1 induced extensive β-sheet structure in Aβ(1–42).

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10

Moure, Alejandra, Santiago V. Luis i Ignacio Alfonso. "Efficient Synthesis of Pseudopeptidic Molecular Cages". Chemistry - A European Journal 18, nr 18 (29.03.2012): 5496–500. http://dx.doi.org/10.1002/chem.201104045.

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Rozprawy doktorskie na temat "Pseudopeptidic molecules"

1

B, Bijesh M. "Self-assembly and anion recognition properties of designer pseudopeptidic molecules". Thesis, IIT Delhi, 2017. http://localhost:8080/iit/handle/2074/7221.

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Calbo, Sébastien. "Role du squelette carbone du peptide antigenique dans l'interaction avec les molecules du complexe majeur d'histocompatibilite et dans la degenerescence de la reconnaissance t : immunologie". Paris 5, 1998. http://www.theses.fr/1998PA05N141.

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Deng, Cheng. "Analyses conformationnelles de nouveaux systèmes organisés biomimétiques". Thesis, Université de Lorraine, 2014. http://www.theses.fr/2014LORR0247/document.

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Le sujet de cette thèse concerne les études structurales d'une nouvelle génération d'oligomères, les foldamères, construits à partir de mimes pseudopeptidiques capables d'adopter des structures secondaires déterminées. Trois familles d'oligomères ont été étudiées. Plusieurs méthodes spectroscopiques ont été à chaque fois employées couplées à la modélisation moléculaire, afin de caractériser les propriétés structurales des foldamères. La première famille a été synthétisée par le groupe de Muriel Amblard et Monique Calmès de l'IBMM à Montpellier. Nous avons évalué les propriétés à se structurer du motif (S)-ABOC. Plusieurs oligomères de tailles variables ont été synthétisés et nous avons montré le motif (S)ABOC lorsqu'il est introduit dans une séquence peptidique est capable de générer des coudes beta. L'enchaînement de ces coudes conduits à la formation d'hélices qui en fonction des motifs pseudo-peptidiques associés présentent des caractéristiques différentes. La seconde famille étudiée comprenait des oligomères formés à partir de monomères contraints de type thiazole. Nous avons montré que ce motif, développé par Ludovic Maillard à l'IBMM à Montpellier forme des pseudocycles en C9 qui s'organisent ensuite en une hélice qui est observable dès le tétramère. La troisième famille d‘oligomères étudiée est issue du LCPM. Elle comprend des oligomères alternant des acides alpha-aminés et des acides aminés de type aza dans lesquels le carbone alpha a été remplacé par un atome d'azote. Nous avons montré que le motif aza induit un repliement en coude beta facilitant la cyclisation de la molécule. Dans ma thèse nous avons caractérisé les propriétés à s'auto-structurer de trois familles de foldamères pseudopeptidiques en combinant les résultats expérimentaux issus de la résonance magnétique nucléaire, la spectroscopie infrarouge, le dichroïsme circulaire et la diffraction des rayons X et en les intégrant à des calculs de modélisation moléculaire. Notre étude répertorie les propriétés de chaque motif à former des éléments de structure secondaire et à induire la formation de foldamères
The subject of this thesis deals with the structural studies of a new generation of oligomers, so called foldamers, constructed from pseudopeptidic mimics and able to adopt determined secondary structures. Three families of oligomers were investigated. For each oligomer several spectroscopic methods have been used combined with molecular modeling in order to characterize their structural properties. The first family was studied in collaration with the group of Muriel Amblard and Monique Calmès at IBMM in Montpellier. We have evaluated the structural properties of the motif (S)-ABOC. Several oligomers of varying sizes were synthesized and we have shown that the pattern (S)-ABOC, when introduced into a peptide sequence, is capable of generating beta turn. The sequence of these turn leads to the formation of helices, which, according to associated pseudo-peptide patterns shows different characteristics. The second project discussed the conformation of oligomers family formed from constrainted thiazole monomers. We have shown that this pattern developed by Ludovic Maillard at IBMM in Montpellier adopted pseudocycles C9 which led to helices. THis property was observed starting from the tetramer. The third family of oligomers comes from the LCPM, alternating oligomers of alpha amino acids and aza amino acids, in which the alpha carbon has been replaced by a nitrogen atom. We showed that the pattern aza induces folding of the beta turn, facilitating the cyclization of the molecule. In this thesis we have characterized the properties to self-structuring of three families of pseudopeptide foldamers by combining experimental results from nuclear magnetic resonance, infrared spectroscopy, circular dichroism and X-ray diffraction combined with molecular modeling calculations. Our study lists the properties of each pattern to form secondary structure elements and to induce the formation of foldamers

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Legrand, Baptiste. "Analyse d'interactions moléculaires par RMN : Étude de la DHFR en présence d'osmolytes et structures de pseudopeptides antimicrobiens en environnement". Phd thesis, Rennes 1, 2009. https://tel.archives-ouvertes.fr/tel-00453405.

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Les osmolytes sont des solutés accumulés dans les cellules de nombreux organismes lors d'une contrainte hyperosmotique pour maintenir le volume cellulaire. Ils peuvent néanmoins induire une inhibition des enzymes dont les bases moléculaires sont au centre de nombreuses études. Nous avons étudié la DHFR, en présence de divers solutés. Les osmolytes ne modifient pas la structure globale de la DHFR et inhibent son activité tout en stabilisant sa structure. Cette inhibition est liée à la diminution du k[indice :]off du produit en présence d'osmolytes. L'étude de la dynamique interne de la DHFR apporte des réponses sur l'origine de l'inhibition de la DHFR en présence d'osmolytes. Une seconde partie présente nos travaux sur la relation structure-activité de peptides antimicrobiens. Ce projet s'inscrit dans la course au développement de nouvelles molécules actives pour substituer les antibiotiques conventionnels. Nous avons déterminé les structures de peptides en environnement membranaire modèle
The osmolytes are small molecules accumulated by cells of a wide variety of organisms in response to hyperosmotic stress to maintain the cellular volume. Nervetheless, enzyme activity is inhibited by these cosolutes and the molecular basis of their effects on the proteins properties is of great interest. We studied the DHFR in presence of the osmolytes. We demonstrate that its overall structure is maintained. While the osmolytes stabilize the DHFR structure, they inhibit its activity at the same time. The k[index :]off, of substrate analogues decreases with increasing the osmolyte concentrations and reflects the variation of DHFR catalytic rate. The study of the DHFR dynamic on several timescales gives answer of the origins of the DHFR inhibition in presence of osmolytes. The second chapter concerns the study of the structure-activity relationship of antimicrobial peptides. The main objective of this project is to develop new drugs. We solved NMR solution structure of in various model membranes

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Hegde, Raghurama P. "X-ray Crystallographic Studies Of Designed Peptides, Self Assembling Pseudopeptides And Molecular Modeling". Thesis, 2006. https://etd.iisc.ac.in/handle/2005/402.

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Structural studies of peptides has relevance for various applications, like, in de novo design of proteins, in designing better catalysts for organic synthesis, in structure based drug design, in the design and construction of synthetic protein mimics and in building novel materials via supramolecular self assembly. Crystal structure determination of peptides is expected to provide information about their static structure, mode of aggregation, solvation and hydrogen bond interactions of the sequences in the solid state. Comparison and analysis of the related structures from the database analysis could provide information about sequence dependent conformational features, which eventually would act as precursor for de novo protein design. Self assembling processes are common throughout nature and technology. Living cells self assemble, and understanding life will therefore require an understanding of self assembly. Supramolecular chemistry has become an area of intense research, partly inspired by biological ensembles in nature, such as collagen and enzymes or protein assemblies in general. Understanding, inducing, and directing such self assembling processes are key to unraveling the progressive emergence of complex matter. Most of the drugs available today have a broad spectrum of action in that they can act on more than one receptor and the mechanism of action of these drugs are poorly understood. Homology modeling of receptors and docking studies with drug molecules (both peptides and non-peptides) would result in a better understanding of the mechanism of drug-receptor binding thus resulting in the design of more specific and effective drugs. This thesis reports the results of X-ray crystallographic studies of ten molecules listed below (Ter: terephthalic acid) and the molecular model of cholecystokinin type 1 receptor (CCK1R). The abbreviations used for the sequences are given in parenthesis. Boc-Gly-Dpg-Gly-Leu-OMe (GDGL), C24H44N4O7 Boc-Val-Ala-Leu-Dpg-Val-Ala-Leu-Val-Ala-Leu-Dpg-Val-Ala-Leu-OMe (VAL14), C78H14 2N14O17 MeO-Leu-Ter-Leu-OMe (LTeL), C22H32N2O6 MeO-DLeu-Ter-DLeu-OMe (DLTeDL), C22H32N2O6 MeO-Ile-Ter-Ile-OMe (ITeI), C22H32N2O6 MeO-Aib-Ter-Aib-OMe (UTeU), C18H24N2O6 Tyr-Aib-Tyr-Val (YUYV), C27H36N4O7 Tyr-Aib-Ala (YUA), C16H23N3O5 Z-Gly-Gly-Val (ZGGV), C17 H23 N3 O6 DL-4-benzamido-N, N-dipropylglutaramic acid (proglumide), C18 H26 N2 O4 Results from the Dpg containing peptide sequences helped to further the understanding of conformational preferences of this residue. The crystallographic studies on the peptide sequence, which forms a supramolecular triple helix and four pseudopeptide sequences, which adopt supramolecular ladder conformations has provided substantial information on the role of non covalent interactions in supramolecular self assembly. Crystal structure of a Gly-Gly containing tripeptide and database analysis has provided insights into the conformations adopted by this segment in peptides and proteins. The docking of the crystal structure of proglumide, an antagonist of CCK1R has led to the understanding of the mechanism of its interaction with CCK1R.

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Hegde, Raghurama P. "X-ray Crystallographic Studies Of Designed Peptides, Self Assembling Pseudopeptides And Molecular Modeling". Thesis, 2006. http://hdl.handle.net/2005/402.

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Structural studies of peptides has relevance for various applications, like, in de novo design of proteins, in designing better catalysts for organic synthesis, in structure based drug design, in the design and construction of synthetic protein mimics and in building novel materials via supramolecular self assembly. Crystal structure determination of peptides is expected to provide information about their static structure, mode of aggregation, solvation and hydrogen bond interactions of the sequences in the solid state. Comparison and analysis of the related structures from the database analysis could provide information about sequence dependent conformational features, which eventually would act as precursor for de novo protein design. Self assembling processes are common throughout nature and technology. Living cells self assemble, and understanding life will therefore require an understanding of self assembly. Supramolecular chemistry has become an area of intense research, partly inspired by biological ensembles in nature, such as collagen and enzymes or protein assemblies in general. Understanding, inducing, and directing such self assembling processes are key to unraveling the progressive emergence of complex matter. Most of the drugs available today have a broad spectrum of action in that they can act on more than one receptor and the mechanism of action of these drugs are poorly understood. Homology modeling of receptors and docking studies with drug molecules (both peptides and non-peptides) would result in a better understanding of the mechanism of drug-receptor binding thus resulting in the design of more specific and effective drugs. This thesis reports the results of X-ray crystallographic studies of ten molecules listed below (Ter: terephthalic acid) and the molecular model of cholecystokinin type 1 receptor (CCK1R). The abbreviations used for the sequences are given in parenthesis. Boc-Gly-Dpg-Gly-Leu-OMe (GDGL), C24H44N4O7 Boc-Val-Ala-Leu-Dpg-Val-Ala-Leu-Val-Ala-Leu-Dpg-Val-Ala-Leu-OMe (VAL14), C78H14 2N14O17 MeO-Leu-Ter-Leu-OMe (LTeL), C22H32N2O6 MeO-DLeu-Ter-DLeu-OMe (DLTeDL), C22H32N2O6 MeO-Ile-Ter-Ile-OMe (ITeI), C22H32N2O6 MeO-Aib-Ter-Aib-OMe (UTeU), C18H24N2O6 Tyr-Aib-Tyr-Val (YUYV), C27H36N4O7 Tyr-Aib-Ala (YUA), C16H23N3O5 Z-Gly-Gly-Val (ZGGV), C17 H23 N3 O6 DL-4-benzamido-N, N-dipropylglutaramic acid (proglumide), C18 H26 N2 O4 Results from the Dpg containing peptide sequences helped to further the understanding of conformational preferences of this residue. The crystallographic studies on the peptide sequence, which forms a supramolecular triple helix and four pseudopeptide sequences, which adopt supramolecular ladder conformations has provided substantial information on the role of non covalent interactions in supramolecular self assembly. Crystal structure of a Gly-Gly containing tripeptide and database analysis has provided insights into the conformations adopted by this segment in peptides and proteins. The docking of the crystal structure of proglumide, an antagonist of CCK1R has led to the understanding of the mechanism of its interaction with CCK1R.

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Gorczyca, Marcelina. "Badanie oddziaływań związków biologicznie aktywnych z modelowymi membranami lipidowymi". Praca doktorska, 2015. https://ruj.uj.edu.pl/xmlui/handle/item/45209.

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Części książek na temat "Pseudopeptidic molecules"

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Mucha, Artur, i Paweł Kafarski. "Peptide and Pseudopeptide Bond Synthesis in Phosphorus Dipeptide Analogs". W Methods in Molecular Biology, 287–301. New York, NY: Springer US, 2019. http://dx.doi.org/10.1007/978-1-0716-0227-0_20.

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Vogel, David M., Sylvie Blondelle i Arno F. Spatola. "Low Molecular Weight Ψ[CH2NH] Pseudopeptides Yield Potent Antimicrobial Agents". W Peptides: The Wave of the Future, 762–63. Dordrecht: Springer Netherlands, 2001. http://dx.doi.org/10.1007/978-94-010-0464-0_356.

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Sawyer, Tomi K., Jackson B. Hester, Heinrich J. Schostarez, S. Thaisrivongs, Gordon L. Bundy, Li Liu, V. Susan Bradford i in. "Exploiting the Molecular Template of Angiotensinogen in the Discovery and Design of Peptidyl, Pseudopeptidyl and Peptidemimetic Inhibitors of Human Renin: A Structure-Activity Perspective". W Advances in Experimental Medicine and Biology, 307–23. Boston, MA: Springer US, 1991. http://dx.doi.org/10.1007/978-1-4684-6012-4_37.

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