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2011 | 58 | 2 |

Tytuł artykułu

Computational study of binding of epothilone A to beta-tubulin

Autorzy

Warianty tytułu

Języki publikacji

EN

Abstrakty

EN
Understanding the interactions of epothilones with β-tubulin is crucial for computer aided rational design of macrocyclic drugs based on epothilones and epothilone derivatives. Despite numerous structure-activity relationship investigations we still lack substantial knowledge about the binding mode of epothilones and their derivatives to β-tubulin. In this work, we reevaluated the electron crystallography structure of epothilone A/β-tubulin complex (PDB entry 1TVK) and proposed an alternative binding mode of epothilone A to β-tubulin that explains more experimental facts.

Słowa kluczowe

Wydawca

-

Rocznik

Tom

58

Numer

2

Opis fizyczny

p.255-260,fig.,ref.

Twórcy

autor
  • Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Warszawa, Poland
autor

Bibliografia

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  • Carlomagno T, Blommers MJJ, Meiler J, Jahnke W, Schupp T, Petersen F, Schinzer D, Altmann K-H, Griesinger C (2003) The high-resolution solution structure of epothilone A bound to tubulin: an understanding of the structure-activity relationships for a powerful class of antitumor agents. Angew Chem Int Ed Engl 42: 2511-2515. 
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  • Fanfrlík J, Bronowska AK, Rezac J, Prenosil O, Konvalinka J, Hobza P (2010) A reliable docking/scoring scheme based on the semiempirical quantum mechanical PM6-DH2 method accurately covering dispersion and H-bonding: HIV-1 protease with 22 ligands. J Phys Chem B 114: 12666-12678. 
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  • Heinz DW, Schubert W-D, Höfle G (2005) Much anticipated - The bioactive conformation of epothilone and its binding to tubulin. Angew Chem Int Ed Engl 44: 1298-1301.  
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  • Johnson J, Kim S-H, Bifano M, DiMarco J, Fairchild C, Gougoutas J, Lee F, Long B, Tokarski J, Vite G (2000) Synthesis, structure proof, and biological activity of epothilone cyclopropanes. Org Lett 2: 1537-1540. 
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  • Korth M, Pitonak M, Rezac J, Hobza P (2010) A Transferable H_Bonding Correction for Semiempirical Quantum-Chemical Methods. J Chem Theory Comput 6: 344-352.
  • Löwe J, Li H, Downing KH, Nogales E (2001) Refined structure of αβ-tubulin at 3.5 Å resolution. J Mol Biol 313: 1045-1057. 
  • Makowski L (1995) Electron crystallography. Taxol found on tubulin. Nature 375: 361-362. 
  • Morris GM, Goodsell DS, Halliday RS, Huey R, Hart J, Belew RK, Olson AJ (1998) Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function. J Comput Chem 19: 1639-1662.
  • Nettles JH, Li H, Cornett B, Krahn JM, Snyder JP, Downing KH (2004) The binding mode of epothilone a on α,β-tubulin by electron crystallography. Science 305: 866-869. 
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  • Nicolaou KC, Ritzén A, Namoto K, Buey RM, Diáz JF, Andreu JM, Wartmann M, Altmann K-H, O'Brate A, Giannakakou P (2002) Chemical synthesis and biological evaluation of novel epothilone B and trans-12,13-cyclopropyl epothilone B analogues. Tetrahedron 58: 6413-6432.
  • Nicolaou KC, Scarpelli R, Bollbuck B, Werschkun B, Pereira MMA, Wartmann M, Altmann K-H, Zaharevitz D, Gussio R, Giannakakou P (2000) Chemical synthesis and biological properties of pyridine epothilones. Chem Biol 7: 593-599. 
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  • Regueiro-Ren A, Borzilleri RM, Zheng X, Kim S-H, Johnson JA, Fairchild CR, Lee FYF, Long BH, Vite GD (2001) Synthesis and biological activity of novel epothilone aziridines. Org Lett 3: 2693-2696. 
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