Concepts and Core Principles of Fragment-Based Drug Design

被引:139
|
作者
Kirsch, Philine [1 ,2 ]
Hartman, Alwin M. [1 ,3 ]
Hirsch, Anna K. H. [1 ,3 ]
Empting, Martin [1 ,2 ]
机构
[1] Helmholtz Ctr Infect Res HZI, Helmholtz Inst Pharmaceut Res Saarland HIPS, Dept Drug Design & Optimizat DDOP, Campus E8-1, D-66123 Saarbrucken, Germany
[2] Saarland Univ, Dept Pharm, Campus E8-1, D-66123 Saarbrucken, Germany
[3] Univ Groningen, Stratingh Inst Chem, Nijenborgh 7, NL-9747 AG Groningen, Netherlands
来源
MOLECULES | 2019年 / 24卷 / 23期
关键词
fragment-based drug design; biophysical screening; rule-of-three; ligand efficiency; fragment optimization; DIFFERENTIAL SCANNING FLUOROMETRY; DYNAMIC COMBINATORIAL CHEMISTRY; SURFACE-PLASMON RESONANCE; THERMAL SHIFT ASSAYS; MICROSCALE THERMOPHORESIS; HIGH-THROUGHPUT; PSEUDOMONAS-AERUGINOSA; LIGAND INTERACTIONS; HIT IDENTIFICATION; CHEMICAL SPACE;
D O I
10.3390/molecules24234309
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
In this review, a general introduction to fragment-based drug design and the underlying concepts is given. General considerations and methodologies ranging from library selection/construction over biophysical screening and evaluation methods to in-depth hit qualification and subsequent optimization strategies are discussed. These principles can be generally applied to most classes of drug targets. The examples given for fragment growing, merging, and linking strategies at the end of the review are set in the fields of enzyme-inhibitor design and macromolecule-macromolecule interaction inhibition. Building upon the foundation of fragment-based drug discovery (FBDD) and its methodologies, we also highlight a few new trends in FBDD.
引用
收藏
页数:22
相关论文
共 50 条
  • [31] Fragment-Based Quantitative Structure-Activity Relationship (FB-QSAR) for Fragment-Based Drug Design
    Du, Qi-Shi
    Huang, Ri-Bo
    Wei, Yu-Tuo
    Pang, Zong-Wen
    Du, Li-Qin
    Chou, Kuo-Chen
    JOURNAL OF COMPUTATIONAL CHEMISTRY, 2009, 30 (02) : 295 - 304
  • [32] Fragment-based drug discovery
    Wendy A. Warr
    Journal of Computer-Aided Molecular Design, 2009, 23 : 453 - 458
  • [33] FFT-based fragment-based drug design on a set of drug targets
    Hall, David R.
    Beglov, Dmitri
    Kozakov, Dima
    Vajda, Sandor
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2014, 247
  • [34] Fragment-based drug discovery
    Warr, Wendy A.
    JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN, 2009, 23 (08) : 453 - 458
  • [35] Fragment-Based Drug Discovery
    Norton, Raymond S.
    AUSTRALIAN JOURNAL OF CHEMISTRY, 2013, 66 (12) : 1463 - 1464
  • [36] The multiple roles of computational chemistry in fragment-based drug design
    Law, Richard
    Barker, Oliver
    Barker, John J.
    Hesterkamp, Thomas
    Godemann, Robert
    Andersen, Ole
    Fryatt, Tara
    Courtney, Steve
    Hallett, Dave
    Whittaker, Mark
    JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN, 2009, 23 (08) : 459 - 473
  • [37] Fragment-Based Drug Design: Computational and Experimental State of the Art
    Hoffer, Laurent
    Renaud, Jean-Paul
    Horvath, Dragos
    COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING, 2011, 14 (06) : 500 - 520
  • [38] MolOptimizer: A Molecular Optimization Toolkit for Fragment-Based Drug Design
    Soffer, Adam
    Viswas, Samuel Joshua
    Alon, Shahar
    Rozenberg, Nofar
    Peled, Amit
    Piro, Daniel
    Vilenchik, Dan
    Akabayov, Barak
    MOLECULES, 2024, 29 (01):
  • [39] In Silico fragment-based drug design using a PASS approach
    Tarasova, Olga A.
    Lagunin, A. A.
    Filimonov, D. A.
    Poroikov, V. V.
    SAR AND QSAR IN ENVIRONMENTAL RESEARCH, 2012, 23 (3-4) : 279 - 296
  • [40] The multiple roles of computational chemistry in fragment-based drug design
    Richard Law
    Oliver Barker
    John J. Barker
    Thomas Hesterkamp
    Robert Godemann
    Ole Andersen
    Tara Fryatt
    Steve Courtney
    Dave Hallett
    Mark Whittaker
    Journal of Computer-Aided Molecular Design, 2009, 23 : 459 - 473