The Design and Docking of Virtual Compound Libraries to Structures of Drug Targets

被引:25
作者
Anderson, Amy C. [1 ]
Wright, Dennis L. [1 ]
机构
[1] Dartmouth Coll, Dept Chem, Hanover, NH 03755 USA
基金
美国国家科学基金会; 美国国家卫生研究院;
关键词
Virtual screening; structure-based drug design; library design; drug discovery; diversity; filtering; ligand binding; docking;
D O I
10.2174/1573409052952279
中图分类号
R914 [药物化学];
学科分类号
100701 ;
摘要
This review provides a detailed analysis of the use of virtual library screening (VLS) in the drug discovery process. The first part is intended as a larger overview of the integrated VLS process. Small molecule and target macromolecule considerations will be described separately and will be subsequently integrated in a discussion of docking, scoring and evaluation. The second half of the review will focus on recent case studies that use VLS as part of an integrated drug discovery program. The case studies will illustrate the range of possible targets in VLS, provide an account of inclusive methodology and reveal the expectations for realistic goals. Recent efforts provide compelling evidence that VLS is successful when practiced in an integrated fashion involving synthetic, structural and computational expertise.
引用
收藏
页码:103 / 127
页数:25
相关论文
共 118 条
[31]   Discovery of small-molecule inhibitors of bcl-2 through structure-based computer screening [J].
Enyedy, IJ ;
Ling, Y ;
Nacro, K ;
Tomita, Y ;
Wu, XH ;
Cao, YY ;
Guo, RB ;
Li, BH ;
Zhu, XF ;
Huang, Y ;
Long, YQ ;
Roller, PP ;
Yang, DJ ;
Wang, SM .
JOURNAL OF MEDICINAL CHEMISTRY, 2001, 44 (25) :4313-4324
[32]   Medicinal chemistry in the new millennium. A glance into the future [J].
Erhardt, PW .
PURE AND APPLIED CHEMISTRY, 2002, 74 (05) :703-785
[33]   DESIGN, ACTIVITY, AND 2.8 A CRYSTAL-STRUCTURE OF A C2 SYMMETRICAL INHIBITOR COMPLEXED TO HIV-1 PROTEASE [J].
ERICKSON, J ;
NEIDHART, DJ ;
VANDRIE, J ;
KEMPF, DJ ;
WANG, XC ;
NORBECK, DW ;
PLATTNER, JJ ;
RITTENHOUSE, JW ;
TURON, M ;
WIDEBURG, N ;
KOHLBRENNER, WE ;
SIMMER, R ;
HELFRICH, R ;
PAUL, DA ;
KNIGGE, M .
SCIENCE, 1990, 249 (4968) :527-533
[34]   Ligand-supported homology modeling of G-protein-coupled receptor sites: Models sufficient for successful virtual screening [J].
Evers, A ;
Klebe, G .
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION, 2004, 43 (02) :248-251
[35]   DOCK 4.0: Search strategies for automated molecular docking of flexible molecule databases [J].
Ewing, TJA ;
Makino, S ;
Skillman, AG ;
Kuntz, ID .
JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN, 2001, 15 (05) :411-428
[36]   Predicting and harnessing protein flexibility in the design of species-specific inhibitors of thymidylate synthase [J].
Fritz, TA ;
Tondi, D ;
Finer-Moore, JS ;
Costi, MP ;
Stroud, RM .
CHEMISTRY & BIOLOGY, 2001, 8 (10) :981-995
[37]   Recent advances in structure-based rational drug design [J].
Gane, PJ ;
Dean, PM .
CURRENT OPINION IN STRUCTURAL BIOLOGY, 2000, 10 (04) :401-404
[38]   Rational design and characterization of a Rac GTPase-specific small molecule inhibitor [J].
Gao, Y ;
Dickerson, JB ;
Guo, F ;
Zheng, J ;
Zheng, Y .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (20) :7618-7623
[39]   Identification of ligand binding sites on proteins using a multi-scale approach [J].
Glick, M ;
Robinson, DD ;
Grant, GH ;
Richards, WG .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2002, 124 (10) :2337-2344
[40]   Knowledge-based scoring function to predict protein-ligand interactions [J].
Gohlke, H ;
Hendlich, M ;
Klebe, G .
JOURNAL OF MOLECULAR BIOLOGY, 2000, 295 (02) :337-356