1
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Shinde DR, Rama Krishna G, Marelli UK. Metal-Free One-Pot Domino Synthesis of Oxazolidinethione Derivatives of Quaternary Amino Acids from α-Amino Esters and Aldehydes Using CS 2. J Org Chem 2024; 89:7109-7114. [PMID: 38319673 DOI: 10.1021/acs.joc.3c02217] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2024]
Abstract
We present a streamlined, metal-free, one-pot domino approach to efficiently synthesize oxazolidinethione derivatives containing substituted quaternary amino acids. This method employs α-amino esters, aldehydes, and CS2 under mild conditions, constructing three new bonds (C-N, C-C, and C-O) to produce oxazolidinethione compounds featuring a quaternary center and a beta-hydroxy derivative in high yields. This scalable protocol enables the creation of libraries of biologically significant, intricate amino acid derivatives using amino esters and aldehydes.
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Affiliation(s)
- Dinesh R Shinde
- Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, 411008 Pune, India
- Central NMR Facility, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, 411008 Pune, India
- Academy of Scientific and Innovative Research (AcSIR), CSIR-HRDC Campus, Sector 19, Kamla Nehru Nagar, Ghaziabad 201002, UP, India
| | - Gamidi Rama Krishna
- X-ray Crystallography, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, 411008 Pune, India
| | - Udaya Kiran Marelli
- Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, 411008 Pune, India
- Central NMR Facility, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, 411008 Pune, India
- Academy of Scientific and Innovative Research (AcSIR), CSIR-HRDC Campus, Sector 19, Kamla Nehru Nagar, Ghaziabad 201002, UP, India
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2
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Dangi A, Pande B, Agrawal S, Sarkar D, Vamkudoth KR, Marelli UK. Total synthesis, structure elucidation and expanded bioactivity of icosalide A: effect of lipophilicity and ester to amide substitution on its bioactivity. Org Biomol Chem 2023. [PMID: 37381727 DOI: 10.1039/d3ob00809f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/30/2023]
Abstract
The first total synthesis of icosalide A, an antibacterial depsipeptide that is unique in that it contains two lipophilic beta-hydroxy acids, has been achieved by following Fmoc solid-phase peptide synthesis in combination with solution-phase synthesis. The ambiguity in the absolute stereochemistry of icosalide A has been resolved by synthesizing the reported structures and other relevant diastereomers of icosalides and comparing their NMR data. NMR-based structure elucidation of icosalide A revealed a well-folded structure with cross-strand hydrogen bonds similar to the anti-parallel beta-sheet conformation in peptides and displayed a synergistic juxtaposition of the aliphatic sidechains. 12 analogues of icosalide A were synthesized by varying the constituent lipophilic beta-hydroxy acid residues, and their biological activities against Bacillus thuringiensis and Paenibacillus dendritiformis were explored. Most of these icosalide analogues showed an MIC of 12.5 μg mL-1 against both bacteria. Swarming inhibition by icosalides was least in B. thuringiensis (8.3%) compared to that in P. dendritiformis (33%). Furthermore, this is the first report of icosalides showing assured inhibitory action (MIC between 2 and 10 μg mL-1) against the active stage of Mycobacterium tuberculosis and cancer cell lines such as HeLa and ThP1. This study could help optimize icosalides for anti-TB, antibacterial, and anti-cancer activities.
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Affiliation(s)
- Abha Dangi
- Central NMR Facility, CSIR-National Chemical Laboratory, Dr Homi Bhabha Road, 411008 Pune, India.
- Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr Homi Bhabha Road, 411008 Pune, India
- Academy of Scientific and Innovative Research (AcSIR), CSIR-HRDC Campus, Sector 19, Kamla Nehru Nagar, Ghaziabad, UP, 201002, India
| | - Bharat Pande
- Academy of Scientific and Innovative Research (AcSIR), CSIR-HRDC Campus, Sector 19, Kamla Nehru Nagar, Ghaziabad, UP, 201002, India
- Biochemical Sciences Division, CSIR-National Chemical Laboratory, Dr Homi Bhabha Road, 411008 Pune, India
| | - Sonia Agrawal
- Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr Homi Bhabha Road, 411008 Pune, India
- Biochemical Sciences Division, CSIR-National Chemical Laboratory, Dr Homi Bhabha Road, 411008 Pune, India
| | - Dhiman Sarkar
- Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr Homi Bhabha Road, 411008 Pune, India
| | - Koteswara Rao Vamkudoth
- Academy of Scientific and Innovative Research (AcSIR), CSIR-HRDC Campus, Sector 19, Kamla Nehru Nagar, Ghaziabad, UP, 201002, India
- Biochemical Sciences Division, CSIR-National Chemical Laboratory, Dr Homi Bhabha Road, 411008 Pune, India
| | - Udaya Kiran Marelli
- Central NMR Facility, CSIR-National Chemical Laboratory, Dr Homi Bhabha Road, 411008 Pune, India.
- Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr Homi Bhabha Road, 411008 Pune, India
- Academy of Scientific and Innovative Research (AcSIR), CSIR-HRDC Campus, Sector 19, Kamla Nehru Nagar, Ghaziabad, UP, 201002, India
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3
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Dangi A, Marelli UK. Exploration of N-arylation of backbone amides as a novel tool for conformational modification in peptides. Chemistry 2023:e202300753. [PMID: 37042215 DOI: 10.1002/chem.202300753] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2023] [Revised: 04/01/2023] [Accepted: 04/03/2023] [Indexed: 04/13/2023]
Abstract
A set of 15 cyclic-hexaalanine and 10 cyclic-pentaalanine peptides containing one or two backbone N-aryl amide bonds were synthesized by following a combination of solution phase and solid phase peptide synthesis. NMR based conformational studies of these N-aryl cyclic-hexaalanine peptides have revealed five distinct template conformations with antiparallel beta sheet structure, and that of N-aryl cyclic-pentaalanine peptides have revealed three template structures. All the template structures have distinct peptide turn features. The conformations in theseN-aryl peptides were compared to those in the commonly studied N-methyl peptide analogs. We observed that the N-aryl peptides have exhibited a considerable conformational homogeneity, and their conformations have significantly differed from those in N-methyl analogs. We anticipate that the N-arylation of backbone amides has the potential for its application as a novel tool for conformational and physicochemical modification in peptides.
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Affiliation(s)
- Abha Dangi
- CSIR-National Chemical Laboratory: National Chemical Laboratory CSIR, Central NMR Facility and Organic Chemistry Division, 411008, Pune, INDIA
| | - Udaya Kiran Marelli
- CSIR-National Chemical Laboratory: National Chemical Laboratory CSIR, Central NMR Facility and Organic Chemistry Division, Pashan, 411008, Pune, INDIA
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4
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Kanungo SS, Mishra AK, Mhamane NB, Marelli UK, Kumar D, Gopinath CS. Possible Fine-Tuning of Methane Activation toward C2 Oxygenates by 3d-Transition Metal-Ions Doped Nano-Ceria-Zirconia. Inorg Chem 2022; 61:19577-19587. [DOI: 10.1021/acs.inorgchem.2c03493] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Affiliation(s)
- Subhashree S. Kanungo
- Catalysis and Inorganic Chemistry Division, CSIR─National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411 008, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, India
| | - Abhaya Kumar Mishra
- Catalysis and Inorganic Chemistry Division, CSIR─National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411 008, India
| | - Nitin B. Mhamane
- Catalysis and Inorganic Chemistry Division, CSIR─National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411 008, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, India
| | - Udaya Kiran Marelli
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, India
- Organic Chemistry Division, CSIR─National Chemical Laboratory, Pune 411 008, India
| | - Dharmesh Kumar
- Shell Technology Centre, Hardware Park, Bengaluru, Karnataka 562149, India
- Qatar Shell Research and Technology Centre, QSTP, P.O. Box 3747, Doha 3747, Qatar
| | - Chinnakonda S. Gopinath
- Catalysis and Inorganic Chemistry Division, CSIR─National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411 008, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, India
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5
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Dangi A, Balmik AA, Ghorpade AK, Gorantla NV, Sonawane SK, Chinnathambi S, Marelli UK. Correction: Residue-based propensity of aggregation in the Tau amyloidogenic hexapeptides AcPHF6* and AcPHF6. RSC Adv 2022; 12:17049. [PMID: 35755580 PMCID: PMC9175536 DOI: 10.1039/d2ra90058k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2022] [Accepted: 05/30/2022] [Indexed: 11/21/2022] Open
Abstract
Correction for ‘Residue-based propensity of aggregation in the Tau amyloidogenic hexapeptides AcPHF6* and AcPHF6’ by Abha Dangi et al., RSC Adv., 2020, 10, 27331–27335, https://doi.org/10.1039/D0RA03809A.
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Affiliation(s)
- Abha Dangi
- Central NMR Facility, CSIR-National Chemical Laboratory Dr HomiBhabha Road 411008 Pune India.,Division of Organic Chemistry, CSIR-National Chemical Laboratory Dr HomiBhabha Road 411008 Pune India.,Academy of Scientific and Innovative Research (AcSIR) Ghaziabad-201002 India
| | - Abhishek Ankur Balmik
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad-201002 India.,Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory Dr HomiBhabha Road 411008 Pune India
| | - Archana Kisan Ghorpade
- Central NMR Facility, CSIR-National Chemical Laboratory Dr HomiBhabha Road 411008 Pune India.,Division of Organic Chemistry, CSIR-National Chemical Laboratory Dr HomiBhabha Road 411008 Pune India
| | - Nalini Vijay Gorantla
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad-201002 India.,Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory Dr HomiBhabha Road 411008 Pune India
| | - Shweta Kishor Sonawane
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad-201002 India.,Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory Dr HomiBhabha Road 411008 Pune India
| | - Subashchandrabose Chinnathambi
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad-201002 India.,Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory Dr HomiBhabha Road 411008 Pune India
| | - Udaya Kiran Marelli
- Central NMR Facility, CSIR-National Chemical Laboratory Dr HomiBhabha Road 411008 Pune India.,Division of Organic Chemistry, CSIR-National Chemical Laboratory Dr HomiBhabha Road 411008 Pune India.,Academy of Scientific and Innovative Research (AcSIR) Ghaziabad-201002 India
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6
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Alam MN, Dash SR, Mukherjee A, Pandole S, Marelli UK, Vanka K, Maity P. [1,3]-Claisen Rearrangement via Removable Functional Group Mediated Radical Stabilization. Org Lett 2021; 23:890-895. [PMID: 33443431 DOI: 10.1021/acs.orglett.0c04109] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
A thermal O-to-C [1,3]-rearrangement of α-hydroxy acid derived enol ethers was achieved under mild conditions. The 2-aminothiophenol protection of carboxylic acids facilitates formation of the [1,3] precursor and its thermal rearrangement via stabilization of a radical intermediate. Experimental and theoretical evidence for dissociative radical pair formation, its captodative stability via aminothiophenol, and a unique solvent effect are presented. The aminothiophenol was deprotected from rearrangement products as well as after derivatization to useful synthons.
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Affiliation(s)
- Md Nirshad Alam
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Pune 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Soumya Ranjan Dash
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India.,Physical and Material Chemistry Division, CSIR-National Chemical Laboratory, Pune 411008, India
| | - Anirban Mukherjee
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Pune 411008, India
| | - Satish Pandole
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Pune 411008, India
| | - Udaya Kiran Marelli
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Pune 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Kumar Vanka
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India.,Physical and Material Chemistry Division, CSIR-National Chemical Laboratory, Pune 411008, India
| | - Pradip Maity
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Pune 411008, India
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7
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Abstract
Histone deacetylase 6 is a class II histone deacetylase primarily present in the cytoplasm and involved in the regulation of various cellular functions. It consists of two catalytic deacetylase domains and a unique zinc finger ubiquitin binding protein domain, which sets it apart from other HDACs. HDAC6 is known to regulate cellular activities by modifying the function of microtubules, HSP90, and cortactin through deacetylation. Apart from the catalytic activity of HDAC6, it interacts with other proteins through either the SE14 domain or the ZnF UBP domain to modulate their functions. Here, we have studied the role of the HDAC6 ZnF UBP domain as a modifier of Tau aggregation by its direct interaction with the polyproline region/repeat region of Tau. Interaction of HDAC6 ZnF UBP with Tau was found to reduce the propensity of Tau to self-aggregate and to disaggregate preformed aggregates in a concentration-dependent manner and also bring about the conformational changes in Tau protein. The interaction of HDAC6 ZnF UBP with Tau results in its degradation, suggesting either proteolytic activity of HDAC6 ZnF UBP or its role in enhancing autoproteolysis of Tau.
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Affiliation(s)
- Abhishek Ankur Balmik
- Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, India
| | - Hariharakrishnan Chidambaram
- Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, India
| | - Abha Dangi
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, India.,Central NMR Facility and Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India
| | - Udaya Kiran Marelli
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, India.,Central NMR Facility and Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India
| | - Subashchandrabose Chinnathambi
- Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, India
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8
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Sonawane SK, Chidambaram H, Boral D, Gorantla NV, Balmik AA, Dangi A, Ramasamy S, Marelli UK, Chinnathambi S. EGCG impedes human Tau aggregation and interacts with Tau. Sci Rep 2020; 10:12579. [PMID: 32724104 PMCID: PMC7387440 DOI: 10.1038/s41598-020-69429-6] [Citation(s) in RCA: 43] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2019] [Accepted: 06/02/2020] [Indexed: 12/13/2022] Open
Abstract
Tau aggregation and accumulation is a key event in the pathogenesis of Alzheimer’s disease. Inhibition of Tau aggregation is therefore a potential therapeutic strategy to ameliorate the disease. Phytochemicals are being highlighted as potential aggregation inhibitors. Epigallocatechin-3-gallate (EGCG) is an active phytochemical of green tea that has shown its potency against various diseases including aggregation inhibition of repeat Tau. The potency of EGCG in altering the PHF assembly of full-length human Tau has not been fully explored. By various biophysical and biochemical analyses like ThS fluorescence assay, MALDI-TOF analysis and Isothermal Titration Calorimetry, we demonstrate dual effect of EGCG on aggregation inhibition and disassembly of full-length Tau and their binding affinity. The IC50 for Tau aggregation by EGCG was found to be 64.2 μM.
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Affiliation(s)
- Shweta Kishor Sonawane
- Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Pune, 411008, India
| | - Hariharakrishnan Chidambaram
- Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Pune, 411008, India
| | - Debjyoti Boral
- Structural Biology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Pune, 411008, India
| | - Nalini Vijay Gorantla
- Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Pune, 411008, India
| | - Abhishek Ankur Balmik
- Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Pune, 411008, India
| | - Abha Dangi
- Central NMR Facility and Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Pune, 411008, India
| | - Sureshkumar Ramasamy
- Structural Biology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Pune, 411008, India
| | - Udaya Kiran Marelli
- Central NMR Facility and Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, 411008, India.,Academy of Scientific and Innovative Research (AcSIR), Pune, 411008, India
| | - Subashchandrabose Chinnathambi
- Neurobiology Group, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, 411008, India. .,Academy of Scientific and Innovative Research (AcSIR), Pune, 411008, India.
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9
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Das TK, Madica K, Krishnan J, Marelli UK, Biju AT. N-Heterocyclic Carbene Catalysis Exploiting Oxidative Imine Umpolung for the Generation of Imidoyl Azoliums. J Org Chem 2020; 85:5114-5121. [DOI: 10.1021/acs.joc.0c00360] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Tamal Kanti Das
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India
- Academy of Scientific and Innovative Research (AcSIR), New Delhi 110020, India
| | - Krishnaprasad Madica
- Department of Organic Chemistry, Indian Institute of Science, Bangalore 560012, India
| | - Jagadeesh Krishnan
- Department of Organic Chemistry, Indian Institute of Science, Bangalore 560012, India
| | - Udaya Kiran Marelli
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India
- Academy of Scientific and Innovative Research (AcSIR), New Delhi 110020, India
| | - Akkattu T. Biju
- Department of Organic Chemistry, Indian Institute of Science, Bangalore 560012, India
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10
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Dangi A, Balmik AA, Ghorpade AK, Gorantla NV, Sonawane SK, Chinnathambi S, Marelli UK. Residue-based propensity of aggregation in the Tau amyloidogenic hexapeptides AcPHF6* and AcPHF6. RSC Adv 2020; 10:27331-27335. [PMID: 35516938 PMCID: PMC9055513 DOI: 10.1039/d0ra03809a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Accepted: 07/09/2020] [Indexed: 11/21/2022] Open
Abstract
In Alzheimer's disease and related tauopathies, the aggregation of microtubule-associated protein, Tau, into fibrils occurs via the interaction of two hexapeptide motifs PHF* 275VQIINK280 and PHF 306VQIVYK311 as β-sheets. To understand the role of the constituent amino acids of PHF and PHF* in the aggregation, a set of 12 alanine mutant peptides was synthesized by replacing each amino acid in PHF and PHF* with alanine and they were characterized by nuclear magnetic resonance (NMR) spectroscopy, circular dichroism (CD), transmission electron microscopy (TEM) and ThS/ANS fluorescence assay. Our studies show that while the aggregation was suppressed in most of the alanine mutant peptides, replacement of glutamine by alanine in both PHF and PHF* enhanced the fibrillization. In the alanine mutant peptides of AcPHF6* and AcPHF6, only the peptides with glutamine to alanine substitution show aggregation akin to that of the parent peptides.![]()
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Affiliation(s)
- Abha Dangi
- Central NMR Facility
- CSIR-National Chemical Laboratory
- 411008 Pune
- India
- Division of Organic Chemistry
| | - Abhishek Ankur Balmik
- Academy of Scientific and Innovative Research (AcSIR)
- 110025 New Delhi
- India
- Neurobiology Group
- Division of Biochemical Sciences
| | - Archana Kisan Ghorpade
- Central NMR Facility
- CSIR-National Chemical Laboratory
- 411008 Pune
- India
- Division of Organic Chemistry
| | - Nalini Vijay Gorantla
- Academy of Scientific and Innovative Research (AcSIR)
- 110025 New Delhi
- India
- Neurobiology Group
- Division of Biochemical Sciences
| | - Shweta Kishor Sonawane
- Academy of Scientific and Innovative Research (AcSIR)
- 110025 New Delhi
- India
- Neurobiology Group
- Division of Biochemical Sciences
| | - Subashchandrabose Chinnathambi
- Academy of Scientific and Innovative Research (AcSIR)
- 110025 New Delhi
- India
- Neurobiology Group
- Division of Biochemical Sciences
| | - Udaya Kiran Marelli
- Central NMR Facility
- CSIR-National Chemical Laboratory
- 411008 Pune
- India
- Division of Organic Chemistry
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11
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Das TK, Ghosh A, Balanna K, Behera P, Gonnade RG, Marelli UK, Das AK, Biju AT. N-Heterocyclic Carbene-Catalyzed Umpolung of Imines for the Enantioselective Synthesis of Dihydroquinoxalines. ACS Catal 2019. [DOI: 10.1021/acscatal.9b00737] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Affiliation(s)
- Tamal Kanti Das
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India
- Academy of Scientific and Innovative Research (AcSIR), New Delhi 110020, India
| | - Avik Ghosh
- School of Mathematical and Computational Sciences, Indian Association for the Cultivation of Science, Kolkata 700032, India
| | - Kuruva Balanna
- Department of Organic Chemistry, Indian Institute of Science, Bangalore 560012, India
| | - Pradipta Behera
- Department of Organic Chemistry, Indian Institute of Science, Bangalore 560012, India
| | - Rajesh G. Gonnade
- Centre for Materials Characterization, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India
| | - Udaya Kiran Marelli
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India
- Academy of Scientific and Innovative Research (AcSIR), New Delhi 110020, India
| | - Abhijit Kumar Das
- School of Mathematical and Computational Sciences, Indian Association for the Cultivation of Science, Kolkata 700032, India
| | - Akkattu T. Biju
- Department of Organic Chemistry, Indian Institute of Science, Bangalore 560012, India
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12
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Reichart F, Maltsev OV, Kapp TG, Räder AFB, Weinmüller M, Marelli UK, Notni J, Wurzer A, Beck R, Wester HJ, Steiger K, Di Maro S, Di Leva FS, Marinelli L, Nieberler M, Reuning U, Schwaiger M, Kessler H. Selective Targeting of Integrin αvβ8 by a Highly Active Cyclic Peptide. J Med Chem 2019; 62:2024-2037. [DOI: 10.1021/acs.jmedchem.8b01588] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Florian Reichart
- Institute for Advanced Study and Center of Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Oleg V. Maltsev
- Institute for Advanced Study and Center of Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Tobias G. Kapp
- Institute for Advanced Study and Center of Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Andreas F. B. Räder
- Institute for Advanced Study and Center of Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Michael Weinmüller
- Institute for Advanced Study and Center of Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Udaya Kiran Marelli
- Central NMR Facility and Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, 411008 Pune, India
| | - Johannes Notni
- Lehrstuhl für Pharmazeutische Radiochemie, Technische Universität München, Walther-Meißner Straße 3, 85748 Garching, Germany
| | - Alexander Wurzer
- Lehrstuhl für Pharmazeutische Radiochemie, Technische Universität München, Walther-Meißner Straße 3, 85748 Garching, Germany
| | - Roswitha Beck
- Lehrstuhl für Pharmazeutische Radiochemie, Technische Universität München, Walther-Meißner Straße 3, 85748 Garching, Germany
| | - Hans-Jürgen Wester
- Lehrstuhl für Pharmazeutische Radiochemie, Technische Universität München, Walther-Meißner Straße 3, 85748 Garching, Germany
| | - Katja Steiger
- Department of Pathology, Technische Universität München, Trogerstraße 18, 81675 München, Germany
| | - Salvatore Di Maro
- DiSTABiF, Università degli Studi della Campania “Luigi Vanvitelli”, Via Vivaldi 43, 81100 Caserta, Italy
| | - Francesco Saverio Di Leva
- Dipartimento di Farmacia, Università degli Studi di Napoli “Federico II”, Via D. Montesano 49, 80131 Naples, Italy
| | - Luciana Marinelli
- Dipartimento di Farmacia, Università degli Studi di Napoli “Federico II”, Via D. Montesano 49, 80131 Naples, Italy
| | - Markus Nieberler
- Department of Oral and Maxillofacial Surgery, University Hospital Rechts der Isar, Technische Universität München, Ismaninger Straße 22, 81679 München, Germany
| | | | | | - Horst Kessler
- Institute for Advanced Study and Center of Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
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13
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Dandela R, Tothadi S, Marelli UK, Nangia A. Systematic synthesis of a 6-component organic-salt alloy of naftopidil, and pentanary, quaternary and ternary multicomponent crystals. IUCrJ 2018; 5:816-822. [PMID: 30443365 PMCID: PMC6211519 DOI: 10.1107/s2052252518014057] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/25/2018] [Accepted: 10/03/2018] [Indexed: 06/09/2023]
Abstract
The single-crystal X-ray structure of a 6-component organic-salt alloy (hexanary) of naftopidil (1) (an active pharmaceutical ingredient) with benzoic acid (2) and four different hydroxy-substituted benzoic acids, i.e. salicylic acid (3), 2,3-di-hydroxybenzoic acid (4), 2,4-di-hydroxybenzoic acid (5) and 2,6-di-hydroxybenzoic acid (6), is reported. The hexanary assembly originates from the observation that the binary salts of naftopidil with the above acids are isostructural. In addition to the 6-component solid, we also describe five 5-component, ten 4-component, and ten 3-component organic-salt alloys of naftopidil (1) with carboxylic acids (2)-(6). These alloys were obtained from different combinations of the acids with the drug. The synthetic design of the multicomponent organic alloys is based on the rationale of geometrical factors (shape and size) and chemical interactions (hydrogen bonds). The common supramolecular synthon in all these crystal structures was the cyclic N+-H⋯O- and O-H⋯O hydrogen-bonded motif of (9) graph set between the 2-hy-droxyammonium group of naftopidil and the carboxyl-ate anion. This ionic synthon is strong and robust, directing the isostructural assembly of naftopidil with up to five different carboxylic acids in the crystal structure together with the lower-level multicomponent adducts. Solution crystallization by slow evaporation provided the multicomponent organic salts and alloys which were characterized by a combination of single-crystal X-ray diffraction, powder X-ray diffraction, NMR and differential scanning calorimetry techniques.
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Affiliation(s)
- Rambabu Dandela
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, Maharashtra 411 008, India
| | - Srinu Tothadi
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, Maharashtra 411 008, India
| | - Udaya Kiran Marelli
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, Maharashtra 411 008, India
- Central NMR Facility, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, Maharashtra 411 008, India
| | - Ashwini Nangia
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, Maharashtra 411 008, India
- School of Chemistry, University of Hyderabad, Prof. C. R. Rao Road, Gachibowli, Hyderabad, Telangana 500 046, India
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14
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Mukherjee S, Ghosh A, Marelli UK, Biju AT. N-Heterocyclic Carbene-Catalyzed Michael–Michael–Lactonization Cascade for the Enantioselective Synthesis of Tricyclic δ-Lactones. Org Lett 2018; 20:2952-2955. [DOI: 10.1021/acs.orglett.8b00998] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Subrata Mukherjee
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India
- Academy of Scientific and Innovative Research (AcSIR), New Delhi 110020, India
| | - Arghya Ghosh
- Department of Organic Chemistry, Indian Institute of Science, Bangalore 560012, India
| | - Udaya Kiran Marelli
- Organic Chemistry Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India
- Academy of Scientific and Innovative Research (AcSIR), New Delhi 110020, India
| | - Akkattu T. Biju
- Department of Organic Chemistry, Indian Institute of Science, Bangalore 560012, India
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15
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Di Leva FS, Tomassi S, Di Maro S, Reichart F, Notni J, Dangi A, Marelli UK, Brancaccio D, Merlino F, Wester HJ, Novellino E, Kessler H, Marinelli L. Von einer Helix zu einem kleinen Ring: Metadynamik-inspirierte, selektive Liganden für αvβ6-Integrin. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201803250] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Francesco Saverio Di Leva
- Dipartimento di Farmacia; Università degli Studi di Napoli Federico II; Via D. Montesano 49 80131 Naples Italien
| | - Stefano Tomassi
- DiSTABiF; Università degli Studi della Campania Luigi Vanvitelli; Via Vivaldi 43 81100 Caserta Italien
| | - Salvatore Di Maro
- DiSTABiF; Università degli Studi della Campania Luigi Vanvitelli; Via Vivaldi 43 81100 Caserta Italien
| | - Florian Reichart
- Institute for Advanced Study and Center of Integrated Protein Science; Department Chemie; Technische Universität München; Lichtenbergstraße 4 85748 Garching Deutschland
| | - Johannes Notni
- Lehrstuhl für Pharmazeutische Radiochemie; Technische Universität München; Walther-Meißner Straße 3 85748 Garching Deutschland
| | - Abha Dangi
- Central NMR Facility and Division of Organic Chemistry; CSIR-National Chemical Laboratory; Dr. Homi Bhabha Road 411008 Pune Indien
| | - Udaya Kiran Marelli
- Institute for Advanced Study and Center of Integrated Protein Science; Department Chemie; Technische Universität München; Lichtenbergstraße 4 85748 Garching Deutschland
- Central NMR Facility and Division of Organic Chemistry; CSIR-National Chemical Laboratory; Dr. Homi Bhabha Road 411008 Pune Indien
| | - Diego Brancaccio
- Dipartimento di Farmacia; Università degli Studi di Napoli Federico II; Via D. Montesano 49 80131 Naples Italien
| | - Francesco Merlino
- Dipartimento di Farmacia; Università degli Studi di Napoli Federico II; Via D. Montesano 49 80131 Naples Italien
| | - Hans-Jürgen Wester
- Lehrstuhl für Pharmazeutische Radiochemie; Technische Universität München; Walther-Meißner Straße 3 85748 Garching Deutschland
| | - Ettore Novellino
- Dipartimento di Farmacia; Università degli Studi di Napoli Federico II; Via D. Montesano 49 80131 Naples Italien
| | - Horst Kessler
- Institute for Advanced Study and Center of Integrated Protein Science; Department Chemie; Technische Universität München; Lichtenbergstraße 4 85748 Garching Deutschland
| | - Luciana Marinelli
- Dipartimento di Farmacia; Università degli Studi di Napoli Federico II; Via D. Montesano 49 80131 Naples Italien
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16
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Di Leva FS, Tomassi S, Di Maro S, Reichart F, Notni J, Dangi A, Marelli UK, Brancaccio D, Merlino F, Wester HJ, Novellino E, Kessler H, Marinelli L. From a Helix to a Small Cycle: Metadynamics-Inspired αvβ6 Integrin Selective Ligands. Angew Chem Int Ed Engl 2018; 57:14645-14649. [DOI: 10.1002/anie.201803250] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2018] [Indexed: 12/13/2022]
Affiliation(s)
- Francesco Saverio Di Leva
- Dipartimento di Farmacia; Università degli Studi di Napoli Federico II; Via D. Montesano 49 80131 Naples Italy
| | - Stefano Tomassi
- DiSTABiF; Università degli Studi della Campania Luigi Vanvitelli; Via Vivaldi 43 81100 Caserta Italy
| | - Salvatore Di Maro
- DiSTABiF; Università degli Studi della Campania Luigi Vanvitelli; Via Vivaldi 43 81100 Caserta Italy
| | - Florian Reichart
- Institute for Advanced Study and Center of Integrated Protein Science; Department Chemie; Technische Universität München; Lichtenbergstraße 4 85748 Garching Germany
| | - Johannes Notni
- Lehrstuhl für Pharmazeutische Radiochemie; Technische Universität München; Walther-Meißner Straße 3 85748 Garching Germany
| | - Abha Dangi
- Central NMR Facility and Division of Organic Chemistry; CSIR-National Chemical Laboratory; Dr. Homi Bhabha Road 411008 Pune India
| | - Udaya Kiran Marelli
- Institute for Advanced Study and Center of Integrated Protein Science; Department Chemie; Technische Universität München; Lichtenbergstraße 4 85748 Garching Germany
- Central NMR Facility and Division of Organic Chemistry; CSIR-National Chemical Laboratory; Dr. Homi Bhabha Road 411008 Pune India
| | - Diego Brancaccio
- Dipartimento di Farmacia; Università degli Studi di Napoli Federico II; Via D. Montesano 49 80131 Naples Italy
| | - Francesco Merlino
- Dipartimento di Farmacia; Università degli Studi di Napoli Federico II; Via D. Montesano 49 80131 Naples Italy
| | - Hans-Jürgen Wester
- Lehrstuhl für Pharmazeutische Radiochemie; Technische Universität München; Walther-Meißner Straße 3 85748 Garching Germany
| | - Ettore Novellino
- Dipartimento di Farmacia; Università degli Studi di Napoli Federico II; Via D. Montesano 49 80131 Naples Italy
| | - Horst Kessler
- Institute for Advanced Study and Center of Integrated Protein Science; Department Chemie; Technische Universität München; Lichtenbergstraße 4 85748 Garching Germany
| | - Luciana Marinelli
- Dipartimento di Farmacia; Università degli Studi di Napoli Federico II; Via D. Montesano 49 80131 Naples Italy
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17
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Kapp TG, Di Leva FS, Notni J, Räder AFB, Fottner M, Reichart F, Reich D, Wurzer A, Steiger K, Novellino E, Marelli UK, Wester HJ, Marinelli L, Kessler H. N-Methylation of isoDGR Peptides: Discovery of a Selective α5β1-Integrin Ligand as a Potent Tumor Imaging Agent. J Med Chem 2018; 61:2490-2499. [DOI: 10.1021/acs.jmedchem.7b01752] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Tobias G. Kapp
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Francesco Saverio Di Leva
- Dipartimento di Farmacia, Università degli Studi di Napoli “Federico II”, Via D. Montesano 49, 80131 Naples, Italy
| | - Johannes Notni
- Lehrstuhl für Pharmazeutische Radiochemie, Technische Universität München, Walther-Meißner Straße 3, 85748 Garching, Germany
| | - Andreas F. B. Räder
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Maximilian Fottner
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Florian Reichart
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Dominik Reich
- Lehrstuhl für Pharmazeutische Radiochemie, Technische Universität München, Walther-Meißner Straße 3, 85748 Garching, Germany
| | - Alexander Wurzer
- Lehrstuhl für Pharmazeutische Radiochemie, Technische Universität München, Walther-Meißner Straße 3, 85748 Garching, Germany
| | - Katja Steiger
- Department of Pathology, Technische Universität München, Trogerstraße 18, 81675 München, Germany
| | - Ettore Novellino
- Dipartimento di Farmacia, Università degli Studi di Napoli “Federico II”, Via D. Montesano 49, 80131 Naples, Italy
| | - Udaya Kiran Marelli
- Central NMR Facility and Division of Organic Chemistry, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, 411008 Pune, India
| | - Hans-Jürgen Wester
- Lehrstuhl für Pharmazeutische Radiochemie, Technische Universität München, Walther-Meißner Straße 3, 85748 Garching, Germany
| | - Luciana Marinelli
- Dipartimento di Farmacia, Università degli Studi di Napoli “Federico II”, Via D. Montesano 49, 80131 Naples, Italy
| | - Horst Kessler
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
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18
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Weinmüller M, Rechenmacher F, Kiran Marelli U, Reichart F, Kapp TG, Räder AFB, Di Leva FS, Marinelli L, Novellino E, Muñoz-Félix JM, Hodivala-Dilke K, Schumacher A, Fanous J, Gilon C, Hoffman A, Kessler H. Overcoming the Lack of Oral Availability of Cyclic Hexapeptides: Design of a Selective and Orally Available Ligand for the Integrin αvβ3. Angew Chem Int Ed Engl 2017; 56:16405-16409. [PMID: 29072809 DOI: 10.1002/anie.201709709] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2017] [Revised: 10/24/2017] [Indexed: 11/12/2022]
Abstract
A highly systematic approach for the development of both orally bioavailable and bioactive cyclic N-methylated hexapeptides as high affinity ligands for the integrin αvβ3 is based on two concepts: a) screening of systematically designed libraries with spatial diversity and b) masking of the peptide charge with a lipophilic protecting group. The key steps of the method are 1) initial design of a combinatorial library of N-methylated analogues of the stem peptide cyclo(d-Ala-Ala5 ); 2) selection of cyclic peptides with the highest intestinal permeability; 3) design of sublibraries with the bioactive RGD sequence in all possible positions; 4) selection of the best ligands for RGD-recognizing integrin subtypes; 5) fine-tuning of the affinity and selectivity by additional Ala to Xaa substitutions; 6) protection of the charged functional groups according to the prodrug concept to regain intestinal and oral permeability; 7) proof of biological effects in mice after oral administration.
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Affiliation(s)
- Michael Weinmüller
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstrasse 4, 85748, Garching, Germany
| | - Florian Rechenmacher
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstrasse 4, 85748, Garching, Germany
| | - Udaya Kiran Marelli
- Central NMR Facility and Division of Organic Chemistry, CSIR-National Chemical Laboratory, Pune, India
| | - Florian Reichart
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstrasse 4, 85748, Garching, Germany
| | - Tobias G Kapp
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstrasse 4, 85748, Garching, Germany
| | - Andreas F B Räder
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstrasse 4, 85748, Garching, Germany
| | | | - Luciana Marinelli
- Dipartimento di Farmacia, Università di Napoli Federico II, Napoli, Italy
| | - Ettore Novellino
- Dipartimento di Farmacia, Università di Napoli Federico II, Napoli, Italy
| | - José M Muñoz-Félix
- Centre for Tumour Biology, Barts Cancer Institute, -, Queen Mary University of London, John Vane Science Centre, Londonn, UK
| | - Kairbaan Hodivala-Dilke
- Centre for Tumour Biology, Barts Cancer Institute, -, Queen Mary University of London, John Vane Science Centre, Londonn, UK
| | - Adi Schumacher
- Institutes of Chemistry and Drug Research, The Hebrew University of Jerusalem, Israel
| | - Joseph Fanous
- Institutes of Chemistry and Drug Research, The Hebrew University of Jerusalem, Israel
| | - Chaim Gilon
- Institutes of Chemistry and Drug Research, The Hebrew University of Jerusalem, Israel
| | - Amnon Hoffman
- Institutes of Chemistry and Drug Research, The Hebrew University of Jerusalem, Israel
| | - Horst Kessler
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstrasse 4, 85748, Garching, Germany
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19
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Cai M, Marelli UK, Mertz B, Beck JG, Opperer F, Rechenmacher F, Kessler H, Hruby VJ. Structural Insights into Selective Ligand-Receptor Interactions Leading to Receptor Inactivation Utilizing Selective Melanocortin 3 Receptor Antagonists. Biochemistry 2017; 56:4201-4209. [PMID: 28715181 DOI: 10.1021/acs.biochem.7b00407] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Systematic N-methylated derivatives of the melanocortin receptor ligand, SHU9119, lead to multiple binding and functional selectivity toward melanocortin receptors. However, the relationship between N-methylation-induced conformational changes in the peptide backbone and side chains and melanocortin receptor selectivity is still unknown. We conducted comprehensive conformational studies in solution of two selective antagonists of the third isoform of the melanocortin receptor (hMC3R), namely, Ac-Nle-c[Asp-NMe-His6-d-Nal(2')7-NMe-Arg8-Trp9-Lys]-NH2 (15) and Ac-Nle-c[Asp-His6-d-Nal(2')7-NMe-Arg8-NMe-Trp9-NMe-Lys]-NH2 (17). It is known that the pharmacophore (His6-DNal7-Arg8-Trp9) of the SHU-9119 peptides occupies a β II-turn-like region with the turn centered about DNal7-Arg8. The analogues with hMC3R selectivity showed distinct differences in the spatial arrangement of the Trp9 side chains. In addition to our NMR studies, we also carried out molecular-level interaction studies of these two peptides at the homology model of hMC3R. Earlier chimeric human melanocortin 3 receptor studies revealed insights regarding the binding and functional sites of hMC3R selectivity. Upon docking of peptides 15 and 17 to the binding pocket of hMC3R, it was revealed that Arg8 and Trp9 side chains are involved in a majority of the interactions with the receptor. While Arg8 forms polar contacts with D154 and D158 of hMC3R, Trp9 utilizes π-π stacking interactions with F295 and F298, located on the transmembrane domain of hMC3R. It is hypothesized that as the frequency of Trp9-hMC3R interactions decrease, antagonistic activity increases. The absence of any interactions of the N-methyl groups with hMC3R suggests that their primary function is to modulate backbone conformations of the ligands.
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Affiliation(s)
- Minying Cai
- Department of Chemistry and Biochemistry, University of Arizona , Tucson, Arizona 85721, United States
| | - Udaya Kiran Marelli
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany
| | - Blake Mertz
- C. Eugene Bennett Department of Chemistry, West Virginia University , Morgantown, West Virginia 26506, United States
| | - Johannes G Beck
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany
| | - Florian Opperer
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany
| | - Florian Rechenmacher
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany
| | - Horst Kessler
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany
| | - Victor J Hruby
- Department of Chemistry and Biochemistry, University of Arizona , Tucson, Arizona 85721, United States
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20
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Kashinath K, Jachak GR, Athawale PR, Marelli UK, Gonnade RG, Reddy DS. Total Synthesis of the Marine Natural Product Solomonamide B Necessitates Stereochemical Revision. Org Lett 2016; 18:3178-81. [PMID: 27332700 DOI: 10.1021/acs.orglett.6b01395] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The first total synthesis of the proposed structure of solomonamide B has been achieved. However, the (1)H and (13)C NMR spectral data of the synthesized compound was not exactly matching with that of the natural solomonamide B. This prompted us to revise the originally proposed structure, in particular, the stereochemistry of the nonpeptide part, which was confirmed by its total synthesis. During the course of the synthesis, we have developed an interesting hydroxy group directed Wacker oxidation of internal olefins in a macrocyclic setting.
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Affiliation(s)
- K Kashinath
- Academy of Scientific and Innovative Research (AcSIR) , New Delhi 110 025, India
| | - Gorakhnath R Jachak
- Academy of Scientific and Innovative Research (AcSIR) , New Delhi 110 025, India
| | | | - Udaya Kiran Marelli
- Academy of Scientific and Innovative Research (AcSIR) , New Delhi 110 025, India
| | - Rajesh G Gonnade
- Academy of Scientific and Innovative Research (AcSIR) , New Delhi 110 025, India
| | - D Srinivasa Reddy
- Academy of Scientific and Innovative Research (AcSIR) , New Delhi 110 025, India
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21
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Maltsev OV, Marelli UK, Kapp TG, Di Leva FS, Di Maro S, Nieberler M, Reuning U, Schwaiger M, Novellino E, Marinelli L, Kessler H. Stable Peptides Instead of Stapled Peptides: Highly Potent αvβ6-Selective Integrin Ligands. Angew Chem Int Ed Engl 2015; 55:1535-9. [PMID: 26663660 DOI: 10.1002/anie.201508709] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Revised: 10/26/2015] [Indexed: 12/15/2022]
Abstract
The αvβ6 integrin binds the RGD-containing peptide of the foot and mouth disease virus with high selectivity. In this study, the long binding helix of this ligand was downsized to an enzymatically stable cyclic peptide endowed with sub-nanomolar binding affinity toward the αvβ6 receptor and remarkable selectivity against other integrins. Computational studies were performed to disclose the molecular bases underlying the high binding affinity and receptor subtype selectivity of this peptide. Finally, the utility of the ligand for use in biomedical studies was also demonstrated here.
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Affiliation(s)
- Oleg V Maltsev
- Institute for Advanced Study and Center for Integrated Protein Science (CIPSM), Technische Universität München, Lichtenbergstrasse 4, 85747, Garching, Germany
| | - Udaya Kiran Marelli
- Institute for Advanced Study and Center for Integrated Protein Science (CIPSM), Technische Universität München, Lichtenbergstrasse 4, 85747, Garching, Germany
| | - Tobias G Kapp
- Institute for Advanced Study and Center for Integrated Protein Science (CIPSM), Technische Universität München, Lichtenbergstrasse 4, 85747, Garching, Germany
| | - Francesco Saverio Di Leva
- Dipartimento di Farmacia, Università di Napoli Federico II, Via D. Montesano 49, 80131, Napoli, Italy
| | - Salvatore Di Maro
- DiSTABiF, Secondo Università di Napoli, Via Vivaldi 43, 81100, Caserta, Italy
| | - Markus Nieberler
- Department of Oral and Maxillofacial Surgery, University Hospital rechts der Isar, Technische Universität München, Ismaninger Strasse 22, 81675, München, Germany
| | - Ute Reuning
- Klinische Forschergruppe der Frauenklinik, University Hospital rechts der Isar, Technische Universität München, Ismaninger Strasse 22, 81675, München, Germany
| | - Markus Schwaiger
- Department of Nuclear Medicine, University Hospital rechts der Isar, Technische Universität München, Ismaninger Strasse 22, 81675, München, Germany
| | - Ettore Novellino
- Dipartimento di Farmacia, Università di Napoli Federico II, Via D. Montesano 49, 80131, Napoli, Italy
| | - Luciana Marinelli
- Dipartimento di Farmacia, Università di Napoli Federico II, Via D. Montesano 49, 80131, Napoli, Italy
| | - Horst Kessler
- Institute for Advanced Study and Center for Integrated Protein Science (CIPSM), Technische Universität München, Lichtenbergstrasse 4, 85747, Garching, Germany.
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22
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Maltsev OV, Marelli UK, Kapp TG, Di Leva FS, Di Maro S, Nieberler M, Reuning U, Schwaiger M, Novellino E, Marinelli L, Kessler H. Stabile Peptide statt “gestapelte Peptide”: hochaffine αvβ6-selektive Integrinliganden. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201508709] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Oleg V. Maltsev
- Institute for Advanced Study and Center for Integrated Protein Science (CIPSM); Technische Universität München; Lichtenbergstraße 4 85747 Garching Deutschland
| | - Udaya Kiran Marelli
- Institute for Advanced Study and Center for Integrated Protein Science (CIPSM); Technische Universität München; Lichtenbergstraße 4 85747 Garching Deutschland
| | - Tobias G. Kapp
- Institute for Advanced Study and Center for Integrated Protein Science (CIPSM); Technische Universität München; Lichtenbergstraße 4 85747 Garching Deutschland
| | - Francesco Saverio Di Leva
- Dipartimento di Farmacia; Università di Napoli Federico II; Via D. Montesano 49 80131 Napoli Italien
| | - Salvatore Di Maro
- DiSTABiF; Secondo Università di Napoli; Via Vivaldi 43 81100 Caserta Italien
| | - Markus Nieberler
- Department of Oral and Maxillofacial Surgery; University Hospital rechts der Isar, Technische Universität München; Ismaninger Straße 22 81675 München Deutschland
| | - Ute Reuning
- Klinische Forschergruppe der Frauenklinik; University Hospital rechts der Isar, Technische Universität München; Ismaninger Straße 22 81675 München Deutschland
| | - Markus Schwaiger
- Department of Nuclear Medicine; University Hospital rechts der Isar, Technische Universität München; Ismaninger Straße 22 81675 München Deutschland
| | - Ettore Novellino
- Dipartimento di Farmacia; Università di Napoli Federico II; Via D. Montesano 49 80131 Napoli Italien
| | - Luciana Marinelli
- Dipartimento di Farmacia; Università di Napoli Federico II; Via D. Montesano 49 80131 Napoli Italien
| | - Horst Kessler
- Institute for Advanced Study and Center for Integrated Protein Science (CIPSM); Technische Universität München; Lichtenbergstraße 4 85747 Garching Deutschland
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Marelli UK, Ovadia O, Frank AO, Chatterjee J, Gilon C, Hoffman A, Kessler H. cis-Peptide Bonds: A Key for Intestinal Permeability of Peptides? Chemistry 2015; 21:15148-52. [DOI: 10.1002/chem.201501600] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2015] [Indexed: 12/12/2022]
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Cai M, Marelli UK, Bao J, Beck JG, Opperer F, Rechenmacher F, McLeod KR, Zingsheim MR, Doedens L, Kessler H, Hruby VJ. Systematic Backbone Conformational Constraints on a Cyclic Melanotropin Ligand Leads to Highly Selective Ligands for Multiple Melanocortin Receptors. J Med Chem 2015. [PMID: 26218460 DOI: 10.1021/acs.jmedchem.5b00102] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Human melanocortin receptors (hMCRs) have been challenging targets to develop ligands that are explicitly selective for each of their subtypes. To modulate the conformational preferences of the melanocortin ligands and improve the biofunctional agonist/antagonist activities and selectivities, we have applied a backbone N-methylation approach on Ac-Nle-c[Asp-His-D-Nal(2')-Arg-Trp-Lys]-NH2 (Ac-Nle(4)-c[Asp(5),D-Nal(2')(7),Lys(10)]-NH2), a nonselective cyclic peptide antagonist at hMC3R and hMC4R and an agonist at hMC1R and hMC5R. Systematic N-methylated derivatives of Ac-Nle(4)-c[Asp(5),D-Nal(2')(7),Lys(10)]-NH2, with all possible backbone N-methylation combinations, have been synthesized and examined for their binding and functional activities toward melanocortin receptor subtypes 1, 3, 4, and 5 (hMCRs). Several N-methylated analogues are selective and potent agonists or antagonists for hMC1R or hMC5R or have selective antagonist activity for hMC3R. The selective hMC1R ligands show strong binding for human melanoma cells. We have also discovered the first universal antagonist (compound 19) for all subtypes of hMCRs.
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Affiliation(s)
- Minying Cai
- Department of Chemistry and Biochemistry, University of Arizona , Tucson, Arizona 85721, United States
| | - Udaya Kiran Marelli
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany
| | - Jennifer Bao
- Department of Chemistry and Biochemistry, University of Arizona , Tucson, Arizona 85721, United States
| | - Johannes G Beck
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany
| | - Florian Opperer
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany
| | - Florian Rechenmacher
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany
| | - Kaitlyn R McLeod
- Department of Chemistry and Biochemistry, University of Arizona , Tucson, Arizona 85721, United States
| | - Morgan R Zingsheim
- Department of Chemistry and Biochemistry, University of Arizona , Tucson, Arizona 85721, United States
| | - Lucas Doedens
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany
| | - Horst Kessler
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , 85747 Garching, Germany.,Department of Chemistry, Faculty of Science, King Abdulaziz University , 21589 Jeddah, Saudi Arabia
| | - Victor J Hruby
- Department of Chemistry and Biochemistry, University of Arizona , Tucson, Arizona 85721, United States
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Marelli UK, Bezençon J, Puig E, Ernst B, Kessler H. Enantiomeric Cyclic Peptides with Different Caco-2 Permeability Suggest Carrier-Mediated Transport. Chemistry 2015; 21:8023-7. [DOI: 10.1002/chem.201501270] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2015] [Indexed: 12/23/2022]
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26
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Marelli UK, Frank AO, Wahl B, La Pietra V, Novellino E, Marinelli L, Herdtweck E, Groll M, Kessler H. Receptor-bound conformation of cilengitide better represented by its solution-state structure than the solid-state structure. Chemistry 2014; 20:14201-6. [PMID: 25251673 DOI: 10.1002/chem.201403839] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2014] [Indexed: 11/09/2022]
Abstract
The X-ray crystal and NMR spectroscopic structures of the peptide drug candidate Cilengitide (cyclo(RGDf(NMe)Val)) in various solvents are obtained and compared in addition to the integrin receptor bound conformation. The NMR-based solution structures exhibit conformations closely resembling the X-ray structure of Cilengitide bound to the head group of integrin αvβ3. In contrast, the structure of pure Cilengitide recrystallized from methanol reveals a different conformation controlled by the lattice forces of the crystal packing. Molecular modeling studies of the various ligand structures docked to the αvβ3 integrin revealed that utilization of the solid-state conformation of Cilengitide leads-unlike the solution-based structures-to a mismatch of the ligand-receptor interactions compared with the experimentally determined structure of the protein-ligand complex. Such discrepancies between solution and crystal conformations of ligands can be misleading during the structure-based lead optimization process and should thus be taken carefully into account in ligand orientated drug design.
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Affiliation(s)
- Udaya Kiran Marelli
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München, Lichtenbergstr. 4, 85747 Garching (Germany)
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Abstract
Selective and targeted delivery of drugs to tumors is a major challenge for an effective cancer therapy and also to overcome the side-effects associated with current treatments. Overexpression of various receptors on tumor cells is a characteristic structural and biochemical aspect of tumors and distinguishes them from physiologically normal cells. This abnormal feature is therefore suitable for selectively directing anticancer molecules to tumors by using ligands that can preferentially recognize such receptors. Several subtypes of integrin receptors that are crucial for cell adhesion, cell signaling, cell viability, and motility have been shown to have an upregulated expression on cancer cells. Thus, ligands that recognize specific integrin subtypes represent excellent candidates to be conjugated to drugs or drug carrier systems and be targeted to tumors. In this regard, integrins recognizing the RGD cell adhesive sequence have been extensively targeted for tumor-specific drug delivery. Here we review key recent examples on the presentation of RGD-based integrin ligands by means of distinct drug-delivery systems, and discuss the prospects of such therapies to specifically target tumor cells.
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Affiliation(s)
- Udaya Kiran Marelli
- Institute for Advanced Study (IAS) and Center for Integrated Protein Science (CIPSM), Department Chemie, Technische Universität München , Garching , Germany
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28
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Bochen A, Marelli UK, Otto E, Pallarola D, Mas-Moruno C, Di Leva FS, Boehm H, Spatz JP, Novellino E, Kessler H, Marinelli L. Biselectivity of isoDGR peptides for fibronectin binding integrin subtypes α5β1 and αvβ6: conformational control through flanking amino acids. J Med Chem 2013; 56:1509-19. [PMID: 23362923 DOI: 10.1021/jm301221x] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Integrins are the major class of cell adhesion proteins. Their interaction with different ligands of the extracellular matrix is diverse. To get more insight into these interactions, artificial ligands endowed with a well-defined activity/selectivity profile are necessary. Herein, we present a library of cyclic pentapeptides, based on our previously reported peptide motif c(-phg-isoDGR-X-), in which high activity toward fibronectin binding integrins α5β1 and αvβ6 and not on vitronectin binding integrins αvβ3 and αvβ5 has been achieved by changing the flanking amino acids. The structure of the most promising candidates has been determined using a combined approach of NMR, distance geometry, and molecular dynamics simulations, and docking studies have been further used to elucidate the peptide-integrin interactions at the molecular level. The peptides' binding affinity has been characterized by enzyme linked immunosorbent assay experiments, and the results have been verified by cell adhesion experiments on specifically functionalized surfaces.
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Affiliation(s)
- Alexander Bochen
- Institute for Advanced Study and Center of Integrated Protein Science, Department Chemie, Technische Universität München, Lichtenbergstrasse 4, 85747 Garching, Germany
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Chiliveri SC, Kumar S, Marelli UK, Deshmukh MV. Backbone and sidechain methyl Ile (δ1), Leu and Val chemical shift assignments of RDE-4 (1-243), an RNA interference initiation protein in C. elegans. Biomol NMR Assign 2012; 6:143-146. [PMID: 22002349 DOI: 10.1007/s12104-011-9343-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2011] [Accepted: 09/27/2011] [Indexed: 05/31/2023]
Abstract
The RNAi pathway of several organisms requires presence of double stranded RNA binding proteins for functioning of Dicer in gene regulation. In C. elegans, a double stranded RNA binding protein, RDE-4 (385 aa, 44 kDa) recognizes long exogenous dsRNA and initiates the RNAi pathway. We have achieved complete backbone and stereospecific methyl sidechain Ile (δ1), Leu and Val chemical shifts of first 243 amino acids of RDE-4, namely RDE-4ΔC.
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Affiliation(s)
- Sai Chaitanya Chiliveri
- Centre for Cellular and Molecular Biology, Council of Scientific and Industrial Research, Uppal Road, Hyderabad 500007, India
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