1
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The conventional turns rather than irregular γ-/β-turn secondary structures accounting for the antitumor activities of cyclic peptide Phakellistatin 6 analogs. Tetrahedron 2020. [DOI: 10.1016/j.tet.2019.130881] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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2
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Zhao L, Wu J, Bao Y, Jiang S, Wang Z, Guo C, Jin Y, Qu F. Synthesis of novel isoindole-containing phakellistatin 2 analogs and the conformation features affecting their antitumor activities. NEW J CHEM 2019. [DOI: 10.1039/c9nj01832h] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Two novel phakellistatin 2 analogs were synthesized and the conformational features affecting their antitumor activities were studied.
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Affiliation(s)
- Lishuang Zhao
- Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province
- College of Life Science and Technology
- Harbin Normal University
- Harbin
- China
| | - Jingwan Wu
- College of Chemistry & Chemical Engineering
- Harbin Normal University
- Harbin
- China
| | - Yujun Bao
- College of Chemistry & Chemical Engineering
- Harbin Normal University
- Harbin
- China
| | - Shitian Jiang
- College of Chemistry & Chemical Engineering
- Harbin Normal University
- Harbin
- China
| | - Zhiqiang Wang
- College of Chemistry & Chemical Engineering
- Harbin Normal University
- Harbin
- China
| | - Changhong Guo
- Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province
- College of Life Science and Technology
- Harbin Normal University
- Harbin
- China
| | - Yingxue Jin
- College of Chemistry & Chemical Engineering
- Harbin Normal University
- Harbin
- China
| | - Fengyu Qu
- Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province
- College of Life Science and Technology
- Harbin Normal University
- Harbin
- China
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3
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Ota Y, Miyamura S, Araki M, Itoh Y, Yasuda S, Masuda M, Taniguchi T, Sowa Y, Sakai T, Itami K, Yamaguchi J, Suzuki T. Design, synthesis and evaluation of γ-turn mimetics as LSD1-selective inhibitors. Bioorg Med Chem 2018; 26:775-785. [DOI: 10.1016/j.bmc.2017.12.045] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2017] [Revised: 12/25/2017] [Accepted: 12/28/2017] [Indexed: 10/18/2022]
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4
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Wu J, Zhao L, Wang Z, Jin Y. Photo-induced synthesis of chiral galaxamide analogs and the biological activities against human tumor cells. NEW J CHEM 2018. [DOI: 10.1039/c8nj04978e] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Two chiral analogs of galaxamide were synthesized by a photoinduced cyclization reaction.
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Affiliation(s)
- Jingwan Wu
- Key Laboratory of Photochemistry Biomaterials and Energy Storage Materials of Heilongjiang Province
- College of Chemistry & Chemical Engineering
- Harbin Normal University
- Harbin
- China
| | - Lishuang Zhao
- Key Laboratory of Photochemistry Biomaterials and Energy Storage Materials of Heilongjiang Province
- College of Chemistry & Chemical Engineering
- Harbin Normal University
- Harbin
- China
| | - Zhiqiang Wang
- Key Laboratory of Photochemistry Biomaterials and Energy Storage Materials of Heilongjiang Province
- College of Chemistry & Chemical Engineering
- Harbin Normal University
- Harbin
- China
| | - Yingxue Jin
- Key Laboratory of Photochemistry Biomaterials and Energy Storage Materials of Heilongjiang Province
- College of Chemistry & Chemical Engineering
- Harbin Normal University
- Harbin
- China
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5
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Turcotte S, Lubell WD. crystal structure analyses of azasulfuryltripeptides reveal potential for γ-turn mimicry†. Biopolymers 2015; 104:622-8. [DOI: 10.1002/bip.22632] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2015] [Revised: 02/11/2015] [Accepted: 02/14/2015] [Indexed: 11/11/2022]
Affiliation(s)
- Stéphane Turcotte
- Department of Chemistry; Université de Montréal; P.O. Box 6128, Downtown Station Montréal QC H3C 3J7 Canada
| | - William D. Lubell
- Department of Chemistry; Université de Montréal; P.O. Box 6128, Downtown Station Montréal QC H3C 3J7 Canada
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6
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Dutt Konar A. Conformational studies of γ-turn in pseudopeptides containing α-amino acid and conformationally constrained meta amino benzoic acid/meta nitro aniline. J Mol Struct 2013. [DOI: 10.1016/j.molstruc.2012.11.001] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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7
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Boutard N, Dufour-Gallant J, Deaudelin P, Lubell WD. Pyrrolo[3,2-e][1,4]diazepin-2-one Synthesis: A Head-to-Head Comparison of Soluble versus Insoluble Supports. J Org Chem 2011; 76:4533-45. [DOI: 10.1021/jo200424q] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Nicolas Boutard
- Chemistry Department, Université de Montréal, C.P. 6128, Succursale Centre-Ville, Montreal, Quebec H3C 3J7, Canada
| | - Julien Dufour-Gallant
- Chemistry Department, Université de Montréal, C.P. 6128, Succursale Centre-Ville, Montreal, Quebec H3C 3J7, Canada
| | - Philippe Deaudelin
- Chemistry Department, Université de Montréal, C.P. 6128, Succursale Centre-Ville, Montreal, Quebec H3C 3J7, Canada
| | - William D. Lubell
- Chemistry Department, Université de Montréal, C.P. 6128, Succursale Centre-Ville, Montreal, Quebec H3C 3J7, Canada
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8
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Blakeney JS, Reid RC, Le GT, Fairlie DP. Nonpeptidic Ligands for Peptide-Activated G Protein-Coupled Receptors. Chem Rev 2007; 107:2960-3041. [PMID: 17622179 DOI: 10.1021/cr050984g] [Citation(s) in RCA: 78] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Jade S Blakeney
- Centre for Drug Design and Development, Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland 4072, Australia
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9
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Edwards AA, Sanjayan GJ, Hachisu S, Tranter GE, Fleet GW. A novel series of oligomers from 4-aminomethyl-tetrahydrofuran-2-carboxylates with 2,4-cis and 2,4-trans stereochemistry. Tetrahedron 2006. [DOI: 10.1016/j.tet.2006.05.067] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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10
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Ramanathan SK, Keeler J, Lee HL, Reddy DS, Lushington G, Aubé J. Modular synthesis of cyclic peptidomimetics inspired by gamma-turns. Org Lett 2005; 7:1059-62. [PMID: 15760138 DOI: 10.1021/ol047323a] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
[reaction: see text] A series of peptidomimetics based on a gamma-turn motif were synthesized using a modular approach, in which N-protected piperidones were reacted with a selection of 2-hydroxyalkyl azides derived from common l-amino acids. Hydrolysis of the initially formed iminium ethers afforded the targeted series of substituted 1,4-diazepin-5-ones.
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Affiliation(s)
- Senthil Kumar Ramanathan
- Department of Medicinal Chemistry, 1251 Wescoe Hall Drive, Malott Hall, Room 4070, University of Kansas, Lawrence, Kansas 66045-7582, USA
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11
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Cacciatore I, Di Stefano A, Duprè S, Morera E, Pinnen F, Spirito A. Synthesis and biological evaluation of the disulfide form of the glutathione analogue gamma-(L-glutamyl)-L-cysteinyl-L-aspartyl-L-cysteine. Bioorg Chem 2003; 31:109-21. [PMID: 12729568 DOI: 10.1016/s0045-2068(03)00022-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
By using the chain to chain mode of cyclization the title glutathione analogue (4), containing the 11-membered disulfide ring replacing the native -Cys-Gly fragment, has been synthesized and characterized together with its reduced dithiol form gamma-Glu-Cys-Asp-Cys (5). The activity of (4) with gamma-glutamyl-transferase and glutathione reductase has been evaluated and compared with those of the two conformationally restricted glutathione analogues (2) and (3) previously reported.
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Affiliation(s)
- Ivana Cacciatore
- Dipartimento di Scienze del Farmaco, Università "G D'Annunzio," Via dei Vestini 31, Chieti 66100, Italy
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12
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Yuan Z, Blomberg D, Sethson I, Brickmann K, Ekholm K, Johansson B, Nilsson A, Kihlberg J. Synthesis and pharmacological evaluation of an analogue of the peptide hormone oxytocin that contains a mimetic of an inverse gamma-turn. J Med Chem 2002; 45:2512-9. [PMID: 12036359 DOI: 10.1021/jm0110744] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Oxytocin is a neurohypophyseal peptide hormone that induces labor and lactation in mammals. An inverse gamma-turn mimetic corresponding to the tripeptide Ile-Val-Asn has been synthesized and incorporated instead of residues 3-5 of oxytocin to probe the hypothesis that a gamma-turn involving these residues is found in the receptor bound conformation of oxytocin. In the turn mimetic, residues i and i + 1 are connected by a psi[CH(2)O] isostere while a covalent methylene bridge replaces the hydrogen bond that is often found between residues i and i + 2 in gamma-turns. The turn mimetic was assembled from three types of building blocks: an azido epoxide, an alpha-bromo acid, and a protected beta-amino alcohol. The oxytocin analogue did not induce contractions of the uterus nor did it inhibit oxytocin-induced contractions. It is suggested that the loss of bioactivity is mainly due to the presence of a psi[CH(2)O] isostere instead of an amide bond between residues i and i + 1 in the turn mimetic.
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Affiliation(s)
- ZhongQing Yuan
- Organic Chemistry, Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden
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13
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Herrero S, García-López MT, Latorre M, Cenarruzabeitia E, Del Río J, Herranz R. 2-Oxopiperazine-based gamma-turn conformationally constrained peptides: synthesis of CCK-4 analogues. J Org Chem 2002; 67:3866-73. [PMID: 12027705 DOI: 10.1021/jo0256336] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
2-Oxopiperazine derivatives 1 have been designed as mimetics of gamma-turn conformationally constrained tripeptides. The synthetic pathway devised for the preparation of both epimers of 1 at C(5) involves a reductive amination of cyanomethyleneamino pseudopeptides with amino acid derivatives, followed by regiospecific lactamization of the resulting C-backbone branched pseudopeptides. The versatility of this methodology is illustrated in the synthesis of analogues of the tetrapeptides Boc-[Nle(31)]-CCK-4 and Boc-[Lys(o-tolylaminocarbonyl)(31)]-CCK-4. The introduction of the new conformational restriction into these Boc-CCK-4 analogues led to a loss of 2 or 3 orders of magnitude in the affinity at CCK receptors. These results suggest the absence of a gamma-turn in the bioactive conformation of the C-terminal tripeptide of CCK-4.
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Affiliation(s)
- Susana Herrero
- Instituto de Química Médica (CSIC), Juan de la Cierva 3, 28006 Madrid, Spain
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14
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Lindman S, Lindeberg G, Nyberg F, Karlén A, Hallberg A. Comparison of three gamma-turn mimetic scaffolds incorporated into angiotensin II. Bioorg Med Chem 2000; 8:2375-83. [PMID: 11026551 DOI: 10.1016/s0968-0896(00)00169-3] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Rigidification of peptides by cyclization and iterative incorporation of well-defined secondary structure mimetics constitutes one approach to the design of non-peptidergic structures with better defined conformations. We herein present the synthesis of a potential gamma-turn mimetic scaffold, and its incorporation in the 3-5 position of angiotensin II. Two analogues of angiotensin II (Ang II) incorporating this 1,3,5-trisubstituted benzene gamma-turn scaffold were synthesized. Evaluation of the compounds in a radioligand binding assay showed that they lacked affinity to the AT1 receptor. To rationalize these results a geometrical and electrostatical comparison with Ang II analogues encompassing a bicyclic scaffold that delivered inactive pseudo peptides and an azepine scaffold producing highly active ligands was made. This analysis did not provide a clear rationale for the inactivity of the benzene gamma-turn scaffolds.
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Affiliation(s)
- S Lindman
- Department of Organic Pharmaceutical Chemistry, Uppsala Biomedical Centre, Uppsala University, Sweden
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15
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Site-specific structural modification of monoclonal antibodies for therapeutic application. Expert Opin Ther Pat 2000. [DOI: 10.1517/13543776.10.2.251] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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16
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Etzkorn FA, Travins JM, Hart SA. Rare protein turns: γ-turn, helix-turn-helix, and cis-proline mimics. ACTA ACUST UNITED AC 1999. [DOI: 10.1016/s1874-5113(99)80006-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/08/2023]
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17
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18
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Seio K, Wada T, Sakamoto K, Yokoyama S, Sekine M. Chemical Synthesis and Properties of Conformationally Fixed Diuridine Monophosphates as Building Blocks of the RNA Turn Motif. J Org Chem 1998. [DOI: 10.1021/jo971797o] [Citation(s) in RCA: 24] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Kohji Seio
- Department of Life Science, Faculty of Bioscience and Biotechnology, Tokyo Institute of Technology, Nagatsuta, Midoriku, Japan, and Department of Biophysics and Biochemistry, Faculty of Science, The University of Tokyo, Hongo, Bunkyo-ku, Tokyo 113, Japan
| | - Takeshi Wada
- Department of Life Science, Faculty of Bioscience and Biotechnology, Tokyo Institute of Technology, Nagatsuta, Midoriku, Japan, and Department of Biophysics and Biochemistry, Faculty of Science, The University of Tokyo, Hongo, Bunkyo-ku, Tokyo 113, Japan
| | - Kensaku Sakamoto
- Department of Life Science, Faculty of Bioscience and Biotechnology, Tokyo Institute of Technology, Nagatsuta, Midoriku, Japan, and Department of Biophysics and Biochemistry, Faculty of Science, The University of Tokyo, Hongo, Bunkyo-ku, Tokyo 113, Japan
| | - Shigeyuki Yokoyama
- Department of Life Science, Faculty of Bioscience and Biotechnology, Tokyo Institute of Technology, Nagatsuta, Midoriku, Japan, and Department of Biophysics and Biochemistry, Faculty of Science, The University of Tokyo, Hongo, Bunkyo-ku, Tokyo 113, Japan
| | - Mitsuo Sekine
- Department of Life Science, Faculty of Bioscience and Biotechnology, Tokyo Institute of Technology, Nagatsuta, Midoriku, Japan, and Department of Biophysics and Biochemistry, Faculty of Science, The University of Tokyo, Hongo, Bunkyo-ku, Tokyo 113, Japan
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19
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20
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Schmidt B, Lindman S, Tong W, Lindeberg G, Gogoll A, Lai Z, Thörnwall M, Synnergren B, Nilsson A, Welch CJ, Sohtell M, Westerlund C, Nyberg F, Karlén A, Hallberg A. Design, synthesis, and biological activities of four angiotensin II receptor ligands with gamma-turn mimetics replacing amino acid residues 3-5. J Med Chem 1997; 40:903-19. [PMID: 9083479 DOI: 10.1021/jm960553d] [Citation(s) in RCA: 68] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
Disulfide cyclization is a powerful method for reducing the conformational space of a peptide. This in turn may enable the study of its bioactive conformation. Several analogues of angiotensin II (Ang II) containing a disulfide bridge between amino acids 3 and 5 have been reported. Among these the cyclic octapeptides c[Hcy3,5]-Ang II, c[Cys3,5]-Ang II, and c[Pen 3,5]-Ang II showed significant activity at Ang II receptors. We have performed conformational analysis studies using theoretical calculations and 1H-NMR spectroscopy on tripeptide model compounds of these cyclic octapeptides which show that the cyclic moieties of c[Cys3,5]-Ang II and c[Pen3,5]-Ang II preferentially assume an inverse gamma-turn conformation. On the basis of these results, we substituted amino acid residues 3-5 in Ang II with two different gamma-turn mimetics giving four diastereomeric Ang II analogues. Interestingly, two of these are equipotent to Ang II in binding to AT1 receptors. In the contractile test using rabbit aorta rings, one of the analogues is an agonist with full contractile activity approximately equipotent to c[Pen3,5]-Ang II but 300-fold less potent than Ang II. This low potency may suggest that Ang II does not adopt a gamma-turn in the 3-5 region when interacting with the receptor.
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Affiliation(s)
- B Schmidt
- Department of Organic Pharmaceutical Chemistry, Uppsala University, Sweden
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21
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Aubé J. Synthetic routes to lactam peptidomimetics. ACTA ACUST UNITED AC 1997. [DOI: 10.1016/s1874-5113(97)80009-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/18/2023]
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22
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McDonnell JM, Beavil AJ, Mackay GA, Jameson BA, Korngold R, Gould HJ, Sutton BJ. Structure based design and characterization of peptides that inhibit IgE binding to its high-affinity receptor. NATURE STRUCTURAL BIOLOGY 1996; 3:419-26. [PMID: 8612071 DOI: 10.1038/nsb0596-419] [Citation(s) in RCA: 75] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
We have designed synthetic peptide inhibitors of the interaction between IgE and its high affinity receptor, Fc epsilon RI. The structure of the second domain of CD2 was used as a modelling template for the second alpha-chain domain of Fc epsilon RI, the C-C' loop of which has been implicated in the interaction with IgE. An L-amino acid peptide and a retro-enantiomeric D-amino acid peptide were designed to mimic the conformation of the C-C' region. Both peptides were cyclized by disulphide bond formation between terminal cysteine residues, and show mirror image symmetry by circular dichroism analysis. The C-C' peptide mimics act as competitive inhibitors of IgE binding. The cyclic L- and retro D-peptides exhibited KDs of approximately 3 microM and 11 microM, respectively, for IgE. Further, the peptides inhibit IgE-mediated mast cell degranulation, an in vitro model of an allergic response.
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23
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Qabar M, Urban J, Sia C, Klein M, Kahn M. Pharmaceutical applications of peptidomimetics. ACTA ACUST UNITED AC 1996. [DOI: 10.1007/bf00131082] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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24
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Perez JJ, Sanchez YM, Centeno NB. Characterization of the conformational domains of bradykinin by computational methods. J Pept Sci 1995; 1:227-35. [PMID: 9223000 DOI: 10.1002/psc.310010403] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
The AMBER 4.0 force field was used to perform a characterization of the conformational profile of the nonapeptide bradykinin. A thorough conformational search was carried out using molecular dynamics as sampling technique, by computing cycles of high (900 K) and low (300 K) temperature trajectories. A total of 2400 minima were generated and subsequently clustered using the root-mean-square of the backbone dihedral angles as criterium. After the use of a tolerance value of 20 degrees, the conformations were clustered in 233 unique conformations with energies up to 40 kcal/mol above the lowest minimum. The analysis of the low-energy conformations indicate that the peptide exhibits a high tendency to adopt a beta-turn at the C-terminus and a propensity to adopt a bent structure at the N-terminus. These results are in agreement with the experimental evidence reported in the literature and provide detailed information necessary to understand the conformational preferences of the peptide.
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Affiliation(s)
- J J Perez
- Department d'Enginyeria Quimica, Universitat Politecnica de Catalunya, Barcelona, Spain
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25
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El Tayar N, Karajiannis H, van de Waterbeemd H. Structure-lipophilicity relationships of peptides and peptidomimetics. Amino Acids 1995; 8:125-39. [DOI: 10.1007/bf00806487] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/1994] [Accepted: 02/23/1994] [Indexed: 11/28/2022]
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26
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Nikiforovich GV. Computational molecular modeling in peptide drug design. INTERNATIONAL JOURNAL OF PEPTIDE AND PROTEIN RESEARCH 1994; 44:513-31. [PMID: 7705973 DOI: 10.1111/j.1399-3011.1994.tb01140.x] [Citation(s) in RCA: 44] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
The review concentrates on practical applications of computer molecular modeling in peptide drug design. The examples of the predictions (successful or not) made by computational modeling before synthesis of peptide analogs, not the explanations provided after synthesis and biological testing of peptides, are discussed. The review spans over 20 years of predictions made by computer molecular modeling for bradykinin, angiotensin, thyrotropin-releasing factor, tuftsin, substance P, CCK-related peptides, luliberin, alpha-melanotropin and opioid peptides. The described examples are discussed in terms of finding the optimal way to use computer modeling for peptide design. The step-by-step 'technology' of peptide design is outlined in detail.
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Affiliation(s)
- G V Nikiforovich
- Center for Molecular Design, Washington University, St. Louis, Missouri, USA
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Nakanishi H, Ramurthy S, Raktabutr A, Shen R, Kahn M. Peptidomimetics of the immunoglobulin supergene family--a review. Gene 1993; 137:51-6. [PMID: 8282200 DOI: 10.1016/0378-1119(93)90250-7] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
An important goal of structural biochemistry is the reduction of complex molecules to small functional units that are amenable to high-resolution structural analysis and rapid modification. The dissection of multidomain proteins into small synthetic conformationally restricted components is an important step in the design of low-molecular-weight nonpeptides that mimic the activity of the native protein. Mimetics of critical functional domains might possess beneficial properties in comparison to the intact proteinaceous species with regard to specificity and therapeutic potential, and are valuable probes for the study of molecular recognition events.
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29
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Peptidomimetics for Receptor Ligands?Discovery, Development, and Medical Perspectives. ACTA ACUST UNITED AC 1993. [DOI: 10.1002/anie.199312441] [Citation(s) in RCA: 675] [Impact Index Per Article: 21.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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30
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Giannis A, Kolter T. Peptidmimetica für Rezeptorliganden – Entdeckung, Entwicklung und medizinische Perspektiven. Angew Chem Int Ed Engl 1993. [DOI: 10.1002/ange.19931050905] [Citation(s) in RCA: 134] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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31
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Brakch N, Boileau G, Simonetti M, Nault C, Joseph-Bravo P, Rholam M, Cohen P. Prosomatostatin processing in Neuro2A cells. Role of beta-turn structure in the vicinity of the Arg-Lys cleavage site. EUROPEAN JOURNAL OF BIOCHEMISTRY 1993; 216:39-47. [PMID: 8103453 DOI: 10.1111/j.1432-1033.1993.tb18114.x] [Citation(s) in RCA: 26] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
Proline residues located near the processing sites of human prosomatostatin were previously shown to be important for cleavage of the precursor into somatostatin 28 and somatostatin 14 [Gomez, S., Boileau, G., Zollinger, L., Nault, C., Rholam, M. & Cohen, P. (1989) EMBO J. 8, 2911-2916]. In this study, site-directed and regional mutagenesis of the human prosomatostatin cDNA coupled with analysis by circular-dichroism and Fourier-transform-infrared spectroscopies of the native and mutated peptide sequences were used to elucidate the role of proline in proteolytic processing. Glycine was substituted for proline a position -5 and the beta-turn-promoting sequence Pro-Arg-Glu-Arg, located near the somatostatin-14 cleavage site and predicted to form a beta-turn structure, was replaced by Ser-Ser-Asn-Arg or Tyr-Lys-Gly-Arg, which have been shown by X-ray diffraction to form beta turns in other proteins. Analysis of the prosomatostatin-derived peptides produced by expression of the mutated cDNA species in Neuro2A cells indicated that while Pro-5-->Ala abolished cleavage at the dibasic site, the formation of mutants [Gly-5] prosomatostatin, [Ser-5, Ser-4, Arg-3] prosomatostatin and [Tyr-5, Lys-4, Gly-3] prosomatostatin did not affect cleavage at the dibasic site but produced modifications in both the relative proportions of the generated hormones and in precursor processing efficiency. Moreover, spectroscopical analysis showed that whereas these substitutions did not modify the presence of a beta turn structure in the corresponding peptide sequences, replacement of Pro-5-->Ala resulted in a dramatic increase in alpha-helix accompanied by the significant decrease of other structures including beta turn. The data support the hypothesis that the proline residue near the processing site for somatostatin-14 production is an important structural feature for conferring on the cleavage domain the adequate conformation for accessibility to processing enzymes and permitting production of equivalent amounts of both hormones.
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Affiliation(s)
- N Brakch
- Biochimie des Signaux Régulateurs Cellulaires et Moléculaires, Université Pierre et Marie Curie, Paris, France
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Martin SF, Oalmann CJ, Liras S. Cyclopropanes as conformationally restricted peptide isosteres. Design and synthesis of novel collagenase inhibitors. Tetrahedron 1993. [DOI: 10.1016/s0040-4020(01)90212-1] [Citation(s) in RCA: 51] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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