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Kijewska M, Sharfalddin AA, Jaremko Ł, Cal M, Setner B, Siczek M, Stefanowicz P, Hussien MA, Emwas AH, Jaremko M. Lossen Rearrangement of p-Toluenesulfonates of N-Oxyimides in Basic Condition, Theoretical Study, and Molecular Docking. Front Chem 2021; 9:662533. [PMID: 33937199 PMCID: PMC8082858 DOI: 10.3389/fchem.2021.662533] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2021] [Accepted: 03/12/2021] [Indexed: 11/13/2022] Open
Abstract
The sulfonic esters of N-oxyimides are a group of compounds with a wide range of biological activities, as well as a unique reactivity toward amines. They undergo this reaction with primary amines and other nucleophilic reagents according to a Lossen-like rearrangement. The reaction is initiated by nucleophilic attack on a carbonyl group in the succinimide ring followed by isocyanate formation, which next interacts with another nucleophile molecule forming an addition product (e.g., ureido or urethane derivative). However, the secondary amines are also susceptible to other reactions leading to products containing the maleimide ring formed by sulphonic acid elimination. In the case of tertiary amines, this reaction is predominant. To explain the phenomenon of the reactivity of the N- oxyimides toward different types of amines, we employed various spectroscopic and X-ray approaches as well as DFT calculation. Results suggest that the basicity of the amine used for the reaction plays a crucial role in the reaction mechanism that eventually dominates the entire chemical process. Moreover, we applied molecular docking to investigate the ability of the products to act as serine protease inhibitors using human leukocyte elastase (HLE).
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Affiliation(s)
- Monika Kijewska
- Faculty of Chemistry, University of Wrocław, Wrocław, Poland
| | - Abeer A. Sharfalddin
- Department of Chemistry, Faculty of Sciences, King Abdulaziz University, Jeddah, Saudi Arabia
| | - Łukasz Jaremko
- Division of Biological and Environmental Sciences and Engineering, King Abdullah University of Science and Technology, Jeddah, Saudi Arabia
| | - Marta Cal
- Faculty of Chemistry, University of Wrocław, Wrocław, Poland
| | - Bartosz Setner
- Faculty of Chemistry, University of Wrocław, Wrocław, Poland
| | - Miłosz Siczek
- Faculty of Chemistry, University of Wrocław, Wrocław, Poland
| | | | - Mostafa A. Hussien
- Department of Chemistry, Faculty of Sciences, King Abdulaziz University, Jeddah, Saudi Arabia
- Department of Chemistry Faculty of Science, Port Said University, Port Said, Egypt
| | - Abdul-Hamid Emwas
- Core Labs, King Abdullah University of Science and Technology (KAUST), Jeddah, Saudi Arabia
| | - Mariusz Jaremko
- Division of Biological and Environmental Sciences and Engineering, King Abdullah University of Science and Technology, Jeddah, Saudi Arabia
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Nguyen XT, Le TQ, Bui Thi TM, Mac DH, Bui TTT. Synthesis and crystal structure of peptide dimethyl biphenyl hybrid C 52H 60N 6O 10·0.25H 2O. Acta Crystallogr E Crystallogr Commun 2020; 76:1675-1678. [PMID: 33117588 PMCID: PMC7534232 DOI: 10.1107/s2056989020012931] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2020] [Accepted: 09/22/2020] [Indexed: 11/17/2022]
Abstract
The synthesis and crystal structure of peptide 6,6'-dimethyl biphenyl hybrid are described. The title compound was synthesized by reaction between 6,6'-dimethyl-[1,1'-biphen-yl]-2,2'-dicarbonyl dichloride in CH2Cl2, amine HN-proline-phenyl-alanine-alanine-COOMe and Et3N at 273 K under N2 atmosphere and characterized by single-crystal X-ray diffraction. The asymmetric unit contains one peptide mol-ecule and a quarter of a water mol-ecule. A disorder of a methyl and meth-oxy-carbonyl group of one alanine residue is observed with occupancy ratio 0.502 (6):0.498 (6). The structure is consolidated by intra- and inter-molecular hydrogen bonds.
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Affiliation(s)
- Xuan Tu Nguyen
- Department of Chemistry, VNU University of science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hanoi, Vietnam
| | - Thuy Quynh Le
- Department of Chemistry, VNU University of science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hanoi, Vietnam
| | - Tra My Bui Thi
- Department of Chemistry, VNU University of science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hanoi, Vietnam
| | - Dinh Hung Mac
- Department of Chemistry, VNU University of science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hanoi, Vietnam
| | - Thai Thanh Thu Bui
- Department of Chemistry, VNU University of science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hanoi, Vietnam
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Le TQ, Nguyen XT, Nguyen HH, Mac DH, Bui TTT. Crystal structure of a tripeptide biphenyl hybrid C 50H 56N 6O 10·0.5H 2O. Acta Crystallogr E Crystallogr Commun 2020; 76:257-260. [PMID: 32071757 PMCID: PMC7001844 DOI: 10.1107/s2056989020000584] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2020] [Accepted: 01/16/2020] [Indexed: 11/10/2022]
Abstract
A peptide biphenyl hybrid compound {systematic name: dimethyl 2,2'-[((2S,2'S)-2,2'-{[(2S,2'S)-1,1'-([1,1'-biphen-yl]-2,2'-dicarbon-yl)bis-(pyrrolidine-1,2-diyl-2-carbon-yl)]bis-(aza-nedi-yl)}bis-(3-phenyl-propano-yl))bis-(aza-nedi-yl)](2S,2'S)-dipropionate hemihydrate}, C50H56N6O10·0.5H2O, was prepared by coupling of [1,1'-biphen-yl]-2,2'-dicarbonyl dichloride, tri-ethyl-amine and the tripeptide Pro-Phe-Ala in CH2Cl2 at 273 K under an N2 atmosphere. In the crystal, the asymmetric unit contains the peptide biphenyl hybrid accompanied by one-half of a water mol-ecule. A C atom of one of the proline rings is disordered between two positions in a 0.746 (11):0.254 (11) ratio. An important structural aspect of peptide compounds is their capacity to self-associate mediated by inter-molecular and intra-molecular hydrogen bonding. This characteristic can be useful in understanding the inter-actions between peptides and biomacromolecular targets, as well as to explain peptide properties.
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Affiliation(s)
- Thuy Quynh Le
- Department of Chemistry, VNU University of science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hanoi, Vietnam
| | - Xuan Tu Nguyen
- Department of Chemistry, VNU University of science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hanoi, Vietnam
| | - Hung Huy Nguyen
- Department of Chemistry, VNU University of science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hanoi, Vietnam
| | - Dinh Hung Mac
- Department of Chemistry, VNU University of science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hanoi, Vietnam
| | - Thai Thanh Thu Bui
- Department of Chemistry, VNU University of science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hanoi, Vietnam
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One-pot efficient synthesis of N(α)-urethane-protected β- and γ-amino acids. Amino Acids 2012; 44:1085-91. [PMID: 23250684 PMCID: PMC3569585 DOI: 10.1007/s00726-012-1443-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2012] [Accepted: 12/01/2012] [Indexed: 11/11/2022]
Abstract
1-[(4-Methylphenyl)oxy]pyrrolidine-2,5-dione and 1-[(4-methylphenyl)oxy]piperidine-2,6-dione react in a Lossen-type reaction with primary alcohols in the presence of triethylamine to furnish corresponding Nα-urethane-protected β-alanine and γ-aminopropionic acid (GABA), respectively, with excellent yields and purities, in an essentially “one-pot” procedure.
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Lozano JM, Lesmes LP, Carreño LF, Gallego GM, Patarroyo ME. Development of designed site-directed pseudopeptide-peptido-mimetic immunogens as novel minimal subunit-vaccine candidates for malaria. Molecules 2010; 15:8856-89. [PMID: 21135800 PMCID: PMC6259129 DOI: 10.3390/molecules15128856] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2010] [Accepted: 10/28/2010] [Indexed: 11/16/2022] Open
Abstract
Synthetic vaccines constitute the most promising tools for controlling and preventing infectious diseases. When synthetic immunogens are designed from the pathogen native sequences, these are normally poorly immunogenic and do not induce protection, as demonstrated in our research. After attempting many synthetic strategies for improving the immunogenicity properties of these sequences, the approach consisting of identifying high binding motifs present in those, and then performing specific changes on amino-acids belonging to such motifs, has proven to be a workable strategy. In addition, other strategies consisting of chemically introducing non-natural constraints to the backbone topology of the molecule and modifying the α-carbon asymmetry are becoming valuable tools to be considered in this pursuit. Non-natural structural constraints to the peptide backbone can be achieved by introducing peptide bond isosters such as reduced amides, partially retro or retro-inverso modifications or even including urea motifs. The second can be obtained by strategically replacing L-amino-acids with their enantiomeric forms for obtaining both structurally site-directed designed immunogens as potential vaccine candidates and their Ig structural molecular images, both having immuno-therapeutic effects for preventing and controlling malaria.
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MESH Headings
- Animals
- Haplorhini
- Humans
- Malaria Vaccines/chemical synthesis
- Malaria Vaccines/chemistry
- Malaria Vaccines/immunology
- Malaria Vaccines/pharmacology
- Malaria, Falciparum/immunology
- Malaria, Falciparum/prevention & control
- Mice
- Mice, Inbred BALB C
- Peptidomimetics/chemical synthesis
- Peptidomimetics/chemistry
- Peptidomimetics/immunology
- Peptidomimetics/pharmacology
- Vaccines, Subunit/chemical synthesis
- Vaccines, Subunit/chemistry
- Vaccines, Subunit/immunology
- Vaccines, Subunit/pharmacology
- Vaccines, Synthetic/chemistry
- Vaccines, Synthetic/immunology
- Vaccines, Synthetic/pharmacology
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Affiliation(s)
- José Manuel Lozano
- Fundación Instituto de Inmunología de Colombia (FIDIC), Universidad del Rosario and Universidad Nacional de Colombia, Bogotá DC, Colombia.
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Ke D, Zhan C, Li X, Li AD, Yao J. The urea-dipeptides show stronger H-bonding propensity to nucleate β-sheetlike assembly than natural sequence. Tetrahedron 2009. [DOI: 10.1016/j.tet.2009.07.048] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Narendra N, Chennakrishnareddy G, Sureshbabu VV. Application of carbodiimide mediated Lossen rearrangement for the synthesis of α-ureidopeptides and peptidyl ureas employing N-urethane α-amino/peptidyl hydroxamic acids. Org Biomol Chem 2009; 7:3520-6. [DOI: 10.1039/b905790k] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Fischer L, Semetey V, Lozano JM, Schaffner AP, Briand JP, Didierjean C, Guichard G. Succinimidyl Carbamate Derivatives fromN-Protected α-Amino Acids and Dipeptides―Synthesis of Ureidopeptides and Oligourea/Peptide Hybrids. European J Org Chem 2007. [DOI: 10.1002/ejoc.200601010] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Stefanowicz P, Jaremko Ł, Jaremko M, Lis T. Crystal-state studies on p-toluenesulfonates of N-oxyimides—a possible structural basis of serine proteases inhibition. NEW J CHEM 2006. [DOI: 10.1039/b513741a] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Doi M, Asano A, Yoshida H, Inouguchi M, Iwanaga K, Sasaki M, Katsuya Y, Taniguchi T, Yamamoto D. Structure and property of self-assemble valinyl bolaform amides having different chirality. ACTA ACUST UNITED AC 2005; 66:181-9. [PMID: 16138856 DOI: 10.1111/j.1399-3011.2005.00286.x] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Bolaform amides were designed from N,N'-bis(carboethoxy-L-valinyl)-diaminoethane (1) by linking t-butyloxycarbonyl-valine through ethylenediamine (EDA) to enable spectroscopic and X-ray diffraction analyses. N,N'-Bis(Boc-L-valinyl)-diaminoethane (2) and N,N'-bis(Boc-D-valinyl)-diaminoethane (3) were composed of L-Val and D-Val, respectively. N-(Boc-L-valinyl)-N'-(Boc-D-valinyl)-diaminoethane (4) was composed of both L-Val and D-Val, and was achiral (meso-peptide). Peptide 5 was a 1:1 mixture of 2 and 3, and was also achiral (racemate). These peptides mediated gelation of corn oil at a concentration of approximately 1%. Within crystals, the peptides formed beta-sheet ribbons, but differences were observed in hydrogen-bonding patterns and side-chain arrangements. These differences were also deduced from temperature dependence of amide protons. Force-field calculations based on the crystal structures indicated that association of beta-sheet ribbons had energy benefits, and it was assumed that molecular aggregation progressed spontaneously. These structural studies indicated the chirality of amino acids affected for the properties of bolaform amides.
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Affiliation(s)
- M Doi
- Osaka University of Pharmaceutical Sciences, Takatsuki, Osaka, Japan.
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Shimizu LS, Hughes AD, Smith MD, Davis MJ, Zhang BP, Zur Loye HC, Shimizu KD. Self-Assembled Nanotubes that Reversibly Bind Acetic Acid Guests. J Am Chem Soc 2003; 125:14972-3. [PMID: 14653716 DOI: 10.1021/ja036515i] [Citation(s) in RCA: 110] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
A large bis-urea macrocycle was synthesized and assembled into columnar nanotubes containing a sizable cavity. This purely organic nanotube is held together primarily by hydrogen bonding and yet shows remarkable thermal stability up to 180 degrees C in the presence and absence of acetic acid guest. This enables the nanotube to be used as reusable organic zeolite.
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Affiliation(s)
- Linda S Shimizu
- Department of Chemistry and Biochemistry, University of South Carolina, Columbia, South Carolina 29208, USA.
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Ranganathan D, Kurur S, Karle IL. Design, synthesis, and crystal structure of self-assembling norbornene (NBE)-supported two-helix bundles: a unique example of Janus helicity in the solid-state structure of NBE(Aib(5))(2). Biopolymers 2000; 54:249-61. [PMID: 10867633 DOI: 10.1002/1097-0282(20001005)54:4<249::aid-bip20>3.0.co;2-n] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Norbornene-supported bis-helical peptides with the general structure NBE(Aib(n) )(2) (NBE: 2,3-trans-norbornene dicarbonyl unit; Aib: alpha,alpha'-dimethyl glycine unit; n = 4,5) have been synthesized and examined for self-assembly preferences in the solid state. An x-ray study has revealed a phenomenon of Janus helicity in the solid state structure of NBE(Aib(5))(2). The lower homologue NBE(Aib(4))(2), however, shows an identical screw sense for both the helical arms. The difference in the handedness of left and right arms is reflected in the self-assembly patterns. Thus, while the NBE(Aib(4))(2) molecule self-assembles to form an infinite hydrogen-bonded superhelical ladder, the Janus molecule NBE(Aib(5))(2) crystallizes as individual units surrounded by water molecules. The structures of Z-Aib(4)-OMe and Z-Aib(5)-OMe are also presented to compare their conformations with the helical arms of the title compound and also to the already known structures of other X-Aib(n) -Y compounds. The helices in all the molecules are the 3(10)-type.
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Affiliation(s)
- D Ranganathan
- Discovery Laboratory, Indian Institute of Chemical Technology, Hyderabad 500 007, India.
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Molecular recognition and solid phase organic synthesis: Synthesis of unnatural oligomers, techniques for monitoring reactions, and the analysis of combinatorial libraries. ACTA ACUST UNITED AC 1999. [DOI: 10.1016/s1068-7459(99)80013-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
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Ranganathan D, Haridas V, Kurur S, Thomas A, Madhusudanan KP, Nagaraj R, Kunwar AC, Sarma AVS, Karle IL. Demonstration ofendo-cis-(2S,3R)-Bicyclo[2.2.1]hept-5-en-2,3- dicarbonyl Unit as a Reverse-Turn Scaffold and Nucleator of Two-Stranded Parallel β-Sheets: Design, Synthesis, Crystal Structure, and Self-Assembling Properties of Norborneno Peptide Analogues. J Am Chem Soc 1998. [DOI: 10.1021/ja980143+] [Citation(s) in RCA: 38] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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