1
|
Pahan S, Dey S, George G, Mahapatra SP, Puneeth Kumar DRGKR, Gopi HN. Design of Chiral β-Double Helices from γ-Peptide Foldamers. Angew Chem Int Ed Engl 2024; 63:e202316309. [PMID: 38009917 DOI: 10.1002/anie.202316309] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2023] [Revised: 11/24/2023] [Accepted: 11/24/2023] [Indexed: 11/29/2023]
Abstract
Chirality is ubiquitous in nature, and homochirality is manifested in many biomolecules. Although β-double helices are rare in peptides and proteins, they consist of alternating L- and D-amino acids. No peptide double helices with homochiral amino acids have been observed. Here, we report chiral β-double helices constructed from γ-peptides consisting of alternating achiral (E)-α,β-unsaturated 4,4-dimethyl γ-amino acids and chiral (E)-α,β-unsaturated γ-amino acids in both single crystals and in solution. The two independent strands of the same peptide intertwine to form a β-double helix structure, and it is stabilized by inter-strand hydrogen bonds. The peptides with chiral (E)-α,β-unsaturated γ-amino acids derived from α-L-amino acids adopt a (P)-β-double helix, whereas peptides consisting of (E)-α,β-unsaturated γ-amino acids derived from α-D-amino acids adopt an (M)-β-double helix conformation. The circular dichroism (CD) signature of the (P) and (M)-β-double helices and the stability of these peptides at higher temperatures were examined. Furthermore, ion transport studies suggested that these peptides transport ions across membranes. Even though the structural analogy suggests that these new β-double helices are structurally different from those of the α-peptide β-double helices, they retain ion transport activity. The results reported here may open new avenues in the design of functional foldamers.
Collapse
Affiliation(s)
- Saikat Pahan
- Department of Chemistry, Indian Institute of Science Education and Research (IISER), Pune, Dr. Homi Bhabha Road, Pashan, Pune, 411008, India
| | - Sanjit Dey
- Department of Chemistry, Indian Institute of Science Education and Research (IISER), Pune, Dr. Homi Bhabha Road, Pashan, Pune, 411008, India
| | - Gijo George
- Department of Chemistry, Indian Institute of Science Education and Research (IISER), Pune, Dr. Homi Bhabha Road, Pashan, Pune, 411008, India
| | - Souvik Panda Mahapatra
- Department of Chemistry, Indian Institute of Science Education and Research (IISER), Pune, Dr. Homi Bhabha Road, Pashan, Pune, 411008, India
| | - DRGKoppalu R Puneeth Kumar
- Department of Chemistry, Indian Institute of Science Education and Research (IISER), Pune, Dr. Homi Bhabha Road, Pashan, Pune, 411008, India
| | - Hosahudya N Gopi
- Department of Chemistry, Indian Institute of Science Education and Research (IISER), Pune, Dr. Homi Bhabha Road, Pashan, Pune, 411008, India
| |
Collapse
|
2
|
Nalawade SA, Singh M, Puneeth Kumar DRGKR, Dey S, Gopi HN. Stereoselective synthesis of backbone extended π-conjugated amino esters. Org Biomol Chem 2023; 21:2586-2595. [PMID: 36880876 DOI: 10.1039/d3ob00090g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/05/2023]
Abstract
Utilization of the Wittig reaction to synthesize conjugative multiple double bonds is rare. We examined the utility of the Wittig reaction to construct conjugative two and three carbon-carbon double bonds on the N-protected amino acid backbone. The ethyl esters of N-Boc amino acids with multiple carbon-carbon double bonds in the backbone were isolated in excellent yields with exceptional E-selectivity of the double bonds. The allylic alcohols of α,β-unsaturated γ-amino esters were selectively synthesized from the DIBAL-H and BF3·OEt2. The allylic alcohols were transformed into aldehydes using IBX oxidation. Using this protocol, we synthesized ethyl esters of N-Boc-(E,E)-α,β,γ,δ-unsaturated ε-amino acids with various side-chain functionalities and ethyl esters of N-Boc-(E,E,E)-α,β,γ,δ,ε,ζ-unsaturated η-amino acids with excellent yields. We speculated the exceptional E-selectivity is probably due to the stabilization of the planar transition state of the Wittig reaction with the double bond p-orbitals. No racemization was observed in the synthesis of amino acids. The reported process may serve as an excellent route to synthesize multiple conjugative carbon-carbon double bonds.
Collapse
Affiliation(s)
- Sachin A Nalawade
- Department of Chemistry, Indian Institute of Science Education and Research, Dr Homi Bhabha Road, Pashan, Pune-411 008, India.
| | - Manjeet Singh
- Department of Chemistry, Indian Institute of Science Education and Research, Dr Homi Bhabha Road, Pashan, Pune-411 008, India.
| | - DRGKoppalu R Puneeth Kumar
- Department of Chemistry, Indian Institute of Science Education and Research, Dr Homi Bhabha Road, Pashan, Pune-411 008, India.
| | - Sanjit Dey
- Department of Chemistry, Indian Institute of Science Education and Research, Dr Homi Bhabha Road, Pashan, Pune-411 008, India.
| | - Hosahudya N Gopi
- Department of Chemistry, Indian Institute of Science Education and Research, Dr Homi Bhabha Road, Pashan, Pune-411 008, India.
| |
Collapse
|
3
|
Legrand B, Maillard LT. α,β-Unsaturated γ-Peptide Foldamers. Chempluschem 2021; 86:629-645. [PMID: 33856125 DOI: 10.1002/cplu.202100045] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2021] [Revised: 03/31/2021] [Indexed: 01/01/2023]
Abstract
Despite their concomitant emergence in the 1990s, γ-peptide foldamers have not developed as fast as β-peptide foldamers and to date, only a few γ-oligomer structures have been reported, and with sparse applications. Among these examples, sequences containing α,β-unsaturated γ-amino acids have recently drawn attention since the Z/E configurations of the double bond provide opposite planar restrictions leading to divergent conformational behaviors, from helix to extended structures. In this Review, we give a comprehensive overview of the developments of γ-peptide foldamers containing α,β-unsaturated γ-amino acids with examples of applications for health and catalysis, as well as materials science.
Collapse
Affiliation(s)
- Baptiste Legrand
- Institut des Biomolécules Max Mousseron, IBMM, University of Montpellier, ENSCM, CNRS, Montpellier, France., 15 Av. Charles Flahault BP 14 491, 34093, Montpellier Cedex 5, France
| | - Ludovic T Maillard
- Institut des Biomolécules Max Mousseron, IBMM, University of Montpellier, ENSCM, CNRS, Montpellier, France., 15 Av. Charles Flahault BP 14 491, 34093, Montpellier Cedex 5, France
| |
Collapse
|
4
|
Ganesh Kumar M, Veeresh K, Nalawade SA, Nithun RV, Gopi HN. Direct Transformation of N-Protected α,β-Unsaturated γ-Amino Amides into γ-Lactams through a Base-Mediated Molecular Rearrangement. J Org Chem 2019; 84:15145-15153. [PMID: 31657563 DOI: 10.1021/acs.joc.9b01936] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Here, we are reporting a single-step transformation of N-protected α,β-unsaturated γ-amino amides into 5,5-disubstituted γ-lactams through a base-mediated new molecular rearrangement. In contrast to the known N- to C(O) cyclization of saturated γ-amino acids into corresponding γ-lactams, the new rearrangement involves the cyclization between N-terminal Cγ- to C-terminal amide N. The cyclization process was initiated by the migration of double bond from α,β → β,γ position. The enamine-imine tautomerization of the new β,γ-double bond and subsequent 5-exo-trig cyclization of terminal amide leads to the formation of N-protected 5,5-disubstituted γ-lactam. The structures of various γ-lactams obtained from the rearrangement were studied in single crystals. Overall, the results reported here demonstrate the facile and single-step transformation of N-protected α,β-unsaturated γ-amino amides into γ-lactams and provided an excellent opportunity to construct small-molecule peptidomimetics.
Collapse
Affiliation(s)
- Mothukuri Ganesh Kumar
- Department of Chemistry , Indian Institute of Science Education and Research , Dr. Homi Bhabha Road , Pune 411 008 , India
| | - Kuruva Veeresh
- Department of Chemistry , Indian Institute of Science Education and Research , Dr. Homi Bhabha Road , Pune 411 008 , India
| | - Sachin A Nalawade
- Department of Chemistry , Indian Institute of Science Education and Research , Dr. Homi Bhabha Road , Pune 411 008 , India
| | - Raj V Nithun
- Department of Chemistry , Indian Institute of Science Education and Research , Dr. Homi Bhabha Road , Pune 411 008 , India
| | - Hosahudya N Gopi
- Department of Chemistry , Indian Institute of Science Education and Research , Dr. Homi Bhabha Road , Pune 411 008 , India
| |
Collapse
|
5
|
Misra R, Dey S, Reja RM, Gopi HN. Artificial β-Double Helices from Achiral γ-Peptides. Angew Chem Int Ed Engl 2017; 57:1057-1061. [PMID: 29194908 DOI: 10.1002/anie.201711124] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2017] [Indexed: 02/02/2023]
Abstract
Double helices are not common in polypeptides and proteins except in the peptide antibiotic gramicidin A and analogous l,d-peptides. In contrast to natural polypeptides, remarkable β-double-helical structures from achiral γ-peptides built from α,β-unsaturated γ-amino acids have been observed. The crystal structures suggest that they adopted parallel β-double helical structures and these structures are stabilized by the interstrand backbone amide H-bonds. Furthermore, both NMR spectroscopy and fluorescence studies support the existence of double-helical conformations in solution. Although a variety of folded architectures featuring distinct H-bonds have been discovered from the β- and γ-peptide foldamers, this is the first report to show that achiral γ-peptides can spontaneously intertwine into β-double helical structures.
Collapse
Affiliation(s)
- Rajkumar Misra
- Department of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune-, 411 008, India
| | - Sanjit Dey
- Department of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune-, 411 008, India
| | - Rahi M Reja
- Department of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune-, 411 008, India
| | - Hosahudya N Gopi
- Department of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune-, 411 008, India
| |
Collapse
|
6
|
Misra R, Dey S, Reja RM, Gopi HN. Artificial β-Double Helices from Achiral γ-Peptides. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201711124] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Rajkumar Misra
- Department of Chemistry; Indian Institute of Science Education and Research; Dr. Homi Bhabha Road Pune- 411 008 India
| | - Sanjit Dey
- Department of Chemistry; Indian Institute of Science Education and Research; Dr. Homi Bhabha Road Pune- 411 008 India
| | - Rahi M. Reja
- Department of Chemistry; Indian Institute of Science Education and Research; Dr. Homi Bhabha Road Pune- 411 008 India
| | - Hosahudya N. Gopi
- Department of Chemistry; Indian Institute of Science Education and Research; Dr. Homi Bhabha Road Pune- 411 008 India
| |
Collapse
|
7
|
Obregón-Mendoza MA, Estévez-Carmona MM, Hernández-Ortega S, Soriano-García M, Ramírez-Apan MT, Orea L, Pilotzi H, Gnecco D, Cassani J, Enríquez RG. Retro-Curcuminoids as Mimics of Dehydrozingerone and Curcumin: Synthesis, NMR, X-ray, and Cytotoxic Activity. Molecules 2016; 22:E33. [PMID: 28036082 PMCID: PMC6155822 DOI: 10.3390/molecules22010033] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2016] [Revised: 12/13/2016] [Accepted: 12/16/2016] [Indexed: 12/03/2022] Open
Abstract
Curcumin and its derivatives have been extensively studied for their remarkable medicinal properties, and their chemical synthesis has been an important step in the optimization of well-controlled laboratory production. A family of new compounds that mimic the structure of curcumin and curcuminoids, here named retro-curcuminoids (7-14), was synthesized and characterized using 1D ¹H- and 13C-NMR, IR, and mass spectrometry; the X-ray structure of 7, 8, 9, 10, 12, 13, and 14 are reported here for the first time. The main structural feature of these compounds is the reverse linkage of the two aromatic moieties, where the acid chloride moiety is linked to the phenolic group while preserving α, β-unsaturated ketone functionality. The cytotoxic screening of 7, 8, 9, and 10 at 50 and 10 µg/mL was carried out with human cancer cell lines K562, MCF-7, and SKLU-1. Lipid peroxidation on rat brain was also tested for compounds 7 and 10. Compounds 7, 8, and 10 showed relevant cytotoxic activity against these cancer cell lines, and 10 showed a protective effect against lipid peroxidation. The molecular resemblance to curcuminoids and analogs with ortho substituents suggests a potential source of useful bioactive compounds.
Collapse
Affiliation(s)
- Marco A Obregón-Mendoza
- Instituto de Química, Universidad Nacional Autónoma de México, Circuito Exterior, Ciudad Universitaria, México, D.F. C.P. 04510, Mexico.
| | - María Mirian Estévez-Carmona
- Instituto de Química, Universidad Nacional Autónoma de México, Circuito Exterior, Ciudad Universitaria, México, D.F. C.P. 04510, Mexico.
| | - Simón Hernández-Ortega
- Instituto de Química, Universidad Nacional Autónoma de México, Circuito Exterior, Ciudad Universitaria, México, D.F. C.P. 04510, Mexico.
| | - Manuel Soriano-García
- Instituto de Química, Universidad Nacional Autónoma de México, Circuito Exterior, Ciudad Universitaria, México, D.F. C.P. 04510, Mexico.
| | - María Teresa Ramírez-Apan
- Instituto de Química, Universidad Nacional Autónoma de México, Circuito Exterior, Ciudad Universitaria, México, D.F. C.P. 04510, Mexico.
| | - Laura Orea
- Centro de Química, Benemérita Universidad Autónoma de Puebla, Puebla C.P. 72570, Mexico.
| | - Hugo Pilotzi
- Centro de Química, Benemérita Universidad Autónoma de Puebla, Puebla C.P. 72570, Mexico.
| | - Dino Gnecco
- Centro de Química, Benemérita Universidad Autónoma de Puebla, Puebla C.P. 72570, Mexico.
| | - Julia Cassani
- Departamento de Sistemas Biológicos, Universidad Autónoma Metropolitana, Unidad Xochimilco, México, D.F. C.P. 04960, Mexico.
| | - Raúl G Enríquez
- Instituto de Química, Universidad Nacional Autónoma de México, Circuito Exterior, Ciudad Universitaria, México, D.F. C.P. 04510, Mexico.
| |
Collapse
|
8
|
Ordóñez M, Cativiela C, Romero-Estudillo I. An update on the stereoselective synthesis of γ-amino acids. ACTA ACUST UNITED AC 2016. [DOI: 10.1016/j.tetasy.2016.08.011] [Citation(s) in RCA: 58] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
|
9
|
Shi S, Shi H, Li J, Li F, Chen L, Zhang C, Huang Z, Zhao N, Li N, Yang J. Synthesis of the BCD Tricyclic Core of Densanins A and B. Org Lett 2016; 18:1949-51. [PMID: 27065219 DOI: 10.1021/acs.orglett.6b00606] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Shan Shi
- Innovative Research Center of
Medicine, Key Laboratory of Macromolecular Science of Shaanxi Province,
School of Chemistry and Chemical Engineering, Shaanxi Normal University, Chang’an
Campus No. 620, West Chang’an Avenue, Chang’an District, Xi’an 710119, China
| | - HongWei Shi
- Innovative Research Center of
Medicine, Key Laboratory of Macromolecular Science of Shaanxi Province,
School of Chemistry and Chemical Engineering, Shaanxi Normal University, Chang’an
Campus No. 620, West Chang’an Avenue, Chang’an District, Xi’an 710119, China
| | - JianLong Li
- Innovative Research Center of
Medicine, Key Laboratory of Macromolecular Science of Shaanxi Province,
School of Chemistry and Chemical Engineering, Shaanxi Normal University, Chang’an
Campus No. 620, West Chang’an Avenue, Chang’an District, Xi’an 710119, China
| | - Fei Li
- Innovative Research Center of
Medicine, Key Laboratory of Macromolecular Science of Shaanxi Province,
School of Chemistry and Chemical Engineering, Shaanxi Normal University, Chang’an
Campus No. 620, West Chang’an Avenue, Chang’an District, Xi’an 710119, China
| | - Lei Chen
- Innovative Research Center of
Medicine, Key Laboratory of Macromolecular Science of Shaanxi Province,
School of Chemistry and Chemical Engineering, Shaanxi Normal University, Chang’an
Campus No. 620, West Chang’an Avenue, Chang’an District, Xi’an 710119, China
| | - Chao Zhang
- Innovative Research Center of
Medicine, Key Laboratory of Macromolecular Science of Shaanxi Province,
School of Chemistry and Chemical Engineering, Shaanxi Normal University, Chang’an
Campus No. 620, West Chang’an Avenue, Chang’an District, Xi’an 710119, China
| | - ZhiYan Huang
- Innovative Research Center of
Medicine, Key Laboratory of Macromolecular Science of Shaanxi Province,
School of Chemistry and Chemical Engineering, Shaanxi Normal University, Chang’an
Campus No. 620, West Chang’an Avenue, Chang’an District, Xi’an 710119, China
| | - Na Zhao
- Innovative Research Center of
Medicine, Key Laboratory of Macromolecular Science of Shaanxi Province,
School of Chemistry and Chemical Engineering, Shaanxi Normal University, Chang’an
Campus No. 620, West Chang’an Avenue, Chang’an District, Xi’an 710119, China
| | - Nan Li
- Innovative Research Center of
Medicine, Key Laboratory of Macromolecular Science of Shaanxi Province,
School of Chemistry and Chemical Engineering, Shaanxi Normal University, Chang’an
Campus No. 620, West Chang’an Avenue, Chang’an District, Xi’an 710119, China
| | - Jun Yang
- Innovative Research Center of
Medicine, Key Laboratory of Macromolecular Science of Shaanxi Province,
School of Chemistry and Chemical Engineering, Shaanxi Normal University, Chang’an
Campus No. 620, West Chang’an Avenue, Chang’an District, Xi’an 710119, China
| |
Collapse
|
10
|
Bandyopadhyay A, Misra R, Gopi HN. Structural features and molecular aggregations of designed triple-stranded β-sheets in single crystals. Chem Commun (Camb) 2016; 52:4938-41. [DOI: 10.1039/c6cc00127k] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Design, synthesis, single-crystal conformations and molecular aggregations of hybrid triple-stranded β-sheets, and their structural analogy with protein structures are reported.
Collapse
Affiliation(s)
- Anupam Bandyopadhyay
- Department of Chemistry
- Indian Institute of Science Education and Research-Pune
- Pune
- India
| | - Rajkumar Misra
- Department of Chemistry
- Indian Institute of Science Education and Research-Pune
- Pune
- India
| | - Hosahudya N. Gopi
- Department of Chemistry
- Indian Institute of Science Education and Research-Pune
- Pune
- India
| |
Collapse
|
11
|
Anantharaj S, Jayakannan M. Catalysts and temperature driven melt polycondensation reaction for helical poly(ester-urethane)s based on natural L-amino acids. ACTA ACUST UNITED AC 2015. [DOI: 10.1002/pola.27970] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Santhanaraj Anantharaj
- Department of Chemistry; Indian Institute of Science Education and Research (IISER)-Pune; Dr. Homi Bhabha Road Pune Maharashtra 411008 India
| | - Manickam Jayakannan
- Department of Chemistry; Indian Institute of Science Education and Research (IISER)-Pune; Dr. Homi Bhabha Road Pune Maharashtra 411008 India
| |
Collapse
|
12
|
Lengyel GA, Reinert ZE, Griffith BD, Horne WS. Comparison of backbone modification in protein β-sheets by α→γ residue replacement and α-residue methylation. Org Biomol Chem 2015; 12:5375-81. [PMID: 24909436 DOI: 10.1039/c4ob00886c] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
The mimicry of protein tertiary structure by oligomers with unnatural backbones is a significant contemporary research challenge. Among common elements of secondary structure found in natural proteins, sheets have proven the most difficult to address. Here, we report the systematic comparison of different strategies for peptide backbone modification in β-sheets with the goal of identifying the best method for replacing a multi-stranded sheet in a protein tertiary fold. The most effective sheet modifications examined led to native-like tertiary folding behavior with a thermodynamic folded stability comparable to the prototype protein on which the modified backbones are based.
Collapse
Affiliation(s)
- George A Lengyel
- Department of Chemistry, University of Pittsburgh, Pittsburgh, PA 15260, USA.
| | | | | | | |
Collapse
|
13
|
Gražulis S, Merkys A, Vaitkus A, Okulič-Kazarinas M. Computing stoichiometric molecular composition from crystal structures. J Appl Crystallogr 2015; 48:85-91. [PMID: 26089747 PMCID: PMC4453171 DOI: 10.1107/s1600576714025904] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2014] [Accepted: 11/26/2014] [Indexed: 12/05/2022] Open
Abstract
Crystallographic investigations deliver high-accuracy information about positions of atoms in crystal unit cells. For chemists, however, the structure of a molecule is most often of interest. The structure must thus be reconstructed from crystallographic files using symmetry information and chemical properties of atoms. Most existing algorithms faithfully reconstruct separate molecules but not the overall stoichiometry of the complex present in a crystal. Here, an algorithm that can reconstruct stoichiometrically correct multimolecular ensembles is described. This algorithm uses only the crystal symmetry information for determining molecule numbers and their stoichiometric ratios. The algorithm can be used by chemists and crystallographers as a standalone implementation for investigating above-molecular ensembles or as a function implemented in graphical crystal analysis software. The greatest envisaged benefit of the algorithm, however, is for the users of large crystallographic and chemical databases, since it will permit database maintainers to generate stoichiometrically correct chemical representations of crystal structures automatically and to match them against chemical databases, enabling multidisciplinary searches across multiple databases.
Collapse
Affiliation(s)
- Saulius Gražulis
- Vilnius University Institute of Biotechnology, Graiciuno 8, LT-02241 Vilnius, Lithuania
- Vilnius University Faculty of Mathematics and Informatics, Naugarduko 24, LT-03225 Vilnius, Lithuania
| | - Andrius Merkys
- Vilnius University Institute of Biotechnology, Graiciuno 8, LT-02241 Vilnius, Lithuania
| | - Antanas Vaitkus
- Vilnius University Faculty of Mathematics and Informatics, Naugarduko 24, LT-03225 Vilnius, Lithuania
| | | |
Collapse
|
14
|
Ganesh Kumar M, Mali SM, Raja KMP, Gopi HN. Design of Stable β-Hairpin Mimetics through Backbone Disulfide Bonds. Org Lett 2014; 17:230-3. [DOI: 10.1021/ol503310r] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Mothukuri Ganesh Kumar
- Department
of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune 411008, India
| | - Sachitanand M. Mali
- Department
of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune 411008, India
| | - K. Muruga Poopathi Raja
- Department
of Physical Chemistry, School of Chemistry, Madurai Kamaraj University, Madurai 625 021, India
| | - Hosahudya N. Gopi
- Department
of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune 411008, India
| |
Collapse
|
15
|
The CP, Thi TAD, Hoang TP, Ngo QA, Doan DT, Thi THN, Thi TP, Thi THV, Jean M, van de Weghe P, Van TN. Synthesis of new simplified hemiasterlin derivatives with α,β-unsaturated carbonyl moiety. Bioorg Med Chem Lett 2014; 24:2244-6. [PMID: 24745968 DOI: 10.1016/j.bmcl.2014.03.091] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2014] [Revised: 03/26/2014] [Accepted: 03/27/2014] [Indexed: 11/25/2022]
Abstract
In this Letter, we report a convenient and efficient method for the synthesis of new simplified derivatives of hemiasterlin in which the α,α-dimethylbenzylic moiety A is replaced by α,β-unsaturated aryl groups as Michael acceptor. Most of these derivatives have a strong cytotoxic activity on three human tumor cell lines (KB, Hep-G2 and MCF7). Analogs 17b and 17f showed a high cytotoxicity against KB and Hep-G2 cancer cell lines comparable to paclitaxel and ellipticine.
Collapse
Affiliation(s)
- Chinh Pham The
- Institute of Chemistry-Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi, Viet Nam
| | - Tuyet Anh Dang Thi
- Institute of Chemistry-Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi, Viet Nam
| | - Thi Phuong Hoang
- Institute of Chemistry-Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi, Viet Nam
| | - Quoc Anh Ngo
- Institute of Chemistry-Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi, Viet Nam
| | - Duy Tien Doan
- Institute of Chemistry-Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi, Viet Nam
| | - Thu Ha Nguyen Thi
- Institute of Chemistry-Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi, Viet Nam
| | - Tham Pham Thi
- Institute of Chemistry-Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi, Viet Nam
| | - Thu Ha Vu Thi
- Institute of Chemistry-Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi, Viet Nam
| | - M Jean
- Equipe Produits Naturels, Synthèses et Chimie Médicinale (PNSCM), UMR CNRS 6226-Institut des Sciences Chimiques de Rennes, Université de Rennes 1, UFR Sciences Pharmaceutiques et Biologique, 2, Avenue du Prof L. Bernard, F-35043 Rennes Cedex, France
| | - P van de Weghe
- Equipe Produits Naturels, Synthèses et Chimie Médicinale (PNSCM), UMR CNRS 6226-Institut des Sciences Chimiques de Rennes, Université de Rennes 1, UFR Sciences Pharmaceutiques et Biologique, 2, Avenue du Prof L. Bernard, F-35043 Rennes Cedex, France.
| | - Tuyen Nguyen Van
- Institute of Chemistry-Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi, Viet Nam
| |
Collapse
|
16
|
Chen QY, Liu Y, Cai W, Luesch H. Improved total synthesis and biological evaluation of potent apratoxin S4 based anticancer agents with differential stability and further enhanced activity. J Med Chem 2014; 57:3011-29. [PMID: 24660812 PMCID: PMC3993931 DOI: 10.1021/jm4019965] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Apratoxins are cytotoxic natural products originally isolated from marine cyanobacteria that act by preventing cotranslational translocation early in the secretory pathway to downregulate receptor levels and inhibit growth factor secretion, leading to potent antiproliferative activity. Through rational design and total synthesis of an apratoxin A/E hybrid, apratoxin S4 (1a), we have previously improved the antitumor activity and tolerability in vivo. Compound 1a and newly designed analogues apratoxins S7-S9 (1b-d), with various degrees of methylation at C34 (1b,c) or epimeric configuration at C30 (1d), were efficiently synthesized utilizing improved procedures. Optimizations have been applied to the synthesis of key intermediate aldehyde 7 and further include the application of Leighton's silanes and modifications of Kelly's methods to induce thiazoline ring formation in other crucial steps of the apratoxin synthesis. Apratoxin S9 (1d) exhibited increased activity with subnanomolar potency. Apratoxin S8 (1c) lacks the propensity to be deactivated by dehydration and showed efficacy in a human HCT116 xenograft mouse model.
Collapse
Affiliation(s)
- Qi-Yin Chen
- Department of Medicinal Chemistry and ‡Center for Natural Products, Drug Discovery and Development (CNPD3), University of Florida , Gainesville, Florida, United States
| | | | | | | |
Collapse
|
17
|
Mali SM, Ganesh Kumar M, Katariya MM, Gopi HN. HBTU mediated 1-hydroxybenzotriazole (HOBt) conjugate addition: synthesis and stereochemical analysis of β-benzotriazole N-oxide substituted γ-amino acids and hybrid peptides. Org Biomol Chem 2014; 12:8462-72. [DOI: 10.1039/c4ob01548g] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Synthesis and conformational analysis of β-benzotriazole N-oxide (β-BtO) substituted γ-amino acids by direct conjugate addition of HOBt to E-vinylogous γ-amino acids are reported.
Collapse
Affiliation(s)
- Sachitanand M. Mali
- Department of Chemistry
- Indian Institute of Science Education and Research
- Pune-411 008, India
| | - Mothukuri Ganesh Kumar
- Department of Chemistry
- Indian Institute of Science Education and Research
- Pune-411 008, India
| | - Mona M. Katariya
- Department of Chemistry
- Indian Institute of Science Education and Research
- Pune-411 008, India
| | - Hosahudya N. Gopi
- Department of Chemistry
- Indian Institute of Science Education and Research
- Pune-411 008, India
| |
Collapse
|
18
|
Parveen S, Hussain S, Zhu S, Qin X, Hao X, Zhang S, Lu J, Zhu C. Selective synthesis and comparative activity of olefinic isomers of 1,2-benzothiazine-1,1-dioxide carboxylates as aldose reductase inhibitors. RSC Adv 2014. [DOI: 10.1039/c4ra01016g] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
|
19
|
Jadhav SV, Misra R, Singh SK, Gopi HN. Efficient Access to Enantiopure γ4-Amino Acids with Proteinogenic Side-Chains and Structural Investigation of γ4-Asn and γ4-Ser in Hybrid Peptide Helices. Chemistry 2013; 19:16256-62. [DOI: 10.1002/chem.201302732] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2013] [Indexed: 01/09/2023]
|
20
|
Kontokosta D, Mueller DS, Wang HY, Anderson LL. Preparation of α-imino aldehydes by [1,3]-rearrangements of O-alkenyl oximes. Org Lett 2013; 15:4830-3. [PMID: 24004173 DOI: 10.1021/ol402237w] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The synthesis of α-imino aldehydes has been achieved through the thermal [1,3]-rearrangement of O-alkenyl benzophenone oximes. A copper-mediated C-O bond coupling between benzophenone oxime and alkenyl boronic acids provides facile access to the required O-alkenyl oximes and a Horner-Wadsworth-Emmons olefination can be applied to the α-imino aldehyde products to give γ-imino-α,β-unsaturated esters. The scope of the method is described and mechanistic experiments are discussed.
Collapse
Affiliation(s)
- Dimitra Kontokosta
- Department of Chemistry, University of Illinois at Chicago , 845 West Taylor Street, Chicago, Illinois 60607, United States
| | | | | | | |
Collapse
|
21
|
Lin A, Wang J, Mao H, Shi Y, Mao Z, Zhu C. Organocatalytic Asymmetric Allylic Alkylation of Morita-Baylis-Hillman Carbonates with Phosphorus Ylides: Synthesis of Chiral 3-Substituted 2,4-Functionalized 1,4-Pentadienes. European J Org Chem 2013. [DOI: 10.1002/ejoc.201300738] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
|
22
|
Pawar SA, Jabgunde AM, Petzold K, Maguire GEM, Dhavale DD, Kruger HG, Govender T. Investigation and folding pattern of l-ido and d-gluco peptides by EASY ROESY NMR and X-ray. RSC Adv 2013. [DOI: 10.1039/c3ra44542a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
|
23
|
Ganesh Kumar M, Mali SM, Gopi HN. Synthesis and stereochemical analysis of β-nitromethane substituted γ-amino acids and peptides. Org Biomol Chem 2013; 11:803-13. [DOI: 10.1039/c2ob27070f] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
|
24
|
Jadhav SV, Bandyopadhyay A, Gopi HN. Protein secondary structure mimetics: crystal conformations of α/γ4-hybrid peptide12-helices with proteinogenic side chains and their analogy with α- and β-peptide helices. Org Biomol Chem 2013; 11:509-14. [DOI: 10.1039/c2ob26805a] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
|
25
|
Bandyopadhyay A, Gopi HN. Hybrid Peptides: Direct Transformation of α/α, β-Unsaturated γ-Hybrid Peptides to α/γ-Hybrid Peptide 12-Helices. Org Lett 2012; 14:2770-3. [DOI: 10.1021/ol300987d] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Anupam Bandyopadhyay
- Department of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pashan, Pune-411008, India
| | - Hosahudya N. Gopi
- Department of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pashan, Pune-411008, India
| |
Collapse
|
26
|
Bandyopadhyay A, Jadhav SV, Gopi HN. α/γ4-Hybrid peptide helices: synthesis, crystal conformations and analogy with the α-helix. Chem Commun (Camb) 2012; 48:7170-2. [DOI: 10.1039/c2cc32911e] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
|
27
|
Mali SM, Jadhav SV, Gopi HN. Copper(ii) mediated facile and ultra fast peptide synthesis in methanol. Chem Commun (Camb) 2012; 48:7085-7. [DOI: 10.1039/c2cc32581k] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
|
28
|
Bandyopadhyay A, Mali SM, Lunawat P, Raja KMP, Gopi HN. Synthesis and Structural Investigations of Functionalizable Hybrid β-Hairpin. Org Lett 2011; 13:4482-5. [DOI: 10.1021/ol201840p] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Anupam Bandyopadhyay
- Department of Chemistry, Indian Institute of Science Education and Research, Garware Circle, Pashan, Pune-411 021, India, and Department of Physical Chemistry, School of Chemistry, Madurai Kamaraj University, Madurai-625 021, India
| | - Sachitanand M. Mali
- Department of Chemistry, Indian Institute of Science Education and Research, Garware Circle, Pashan, Pune-411 021, India, and Department of Physical Chemistry, School of Chemistry, Madurai Kamaraj University, Madurai-625 021, India
| | - Pooja Lunawat
- Department of Chemistry, Indian Institute of Science Education and Research, Garware Circle, Pashan, Pune-411 021, India, and Department of Physical Chemistry, School of Chemistry, Madurai Kamaraj University, Madurai-625 021, India
| | - K. Muruga Poopathi Raja
- Department of Chemistry, Indian Institute of Science Education and Research, Garware Circle, Pashan, Pune-411 021, India, and Department of Physical Chemistry, School of Chemistry, Madurai Kamaraj University, Madurai-625 021, India
| | - Hosahudya N. Gopi
- Department of Chemistry, Indian Institute of Science Education and Research, Garware Circle, Pashan, Pune-411 021, India, and Department of Physical Chemistry, School of Chemistry, Madurai Kamaraj University, Madurai-625 021, India
| |
Collapse
|