Examining ligand-protein interactions with binding-energy landscapes

被引:7
|
作者
Rejto, PA [1 ]
Bouzida, D [1 ]
Verkhivker, GM [1 ]
机构
[1] Agouron Pharmaceut Inc, La Jolla, CA 92037 USA
关键词
ligand-protein binding; energy landscapes; molecular recognition; molecular anchor;
D O I
10.1007/s002140050420
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
Binding-energy landscapes are used to investigate the thermodynamics of molecular recognition for the pteridine ring, a recognition anchor in binding with dihydrofolate reductase, and two molecules with the same shape but different heteroatom substitutions. The relative importance of hydrogen bonding and hydrophobic interactions in this system is analyzed by comparing these three different decorations of the pteridine scaffold.
引用
收藏
页码:138 / 142
页数:5
相关论文
共 50 条
  • [31] Assessment of multiple binding modes in ligand-protein docking
    Källblad, P
    Mancera, RL
    Todorov, NP
    JOURNAL OF MEDICINAL CHEMISTRY, 2004, 47 (13) : 3334 - 3337
  • [32] Ligand-protein binding thermodynamics from fragments to drugs
    Ferenczy, Gyorgy
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2015, 249
  • [33] HYDROPHOBIC LIGAND-PROTEIN INTERACTIONS - BINDING-KINETICS AND IMMUNOCHEMICAL STUDIES ON THE 4S MOUSE PROTEIN
    BARTON, HA
    MARLETTA, MA
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 1988, 195 : 93 - BIOL
  • [34] Ligand-Protein DataBase: Linking protein-ligand complex structures to binding data
    Roche, O
    Kiyama, R
    Brooks, CL
    JOURNAL OF MEDICINAL CHEMISTRY, 2001, 44 (22) : 3592 - 3598
  • [35] Ligand-Protein Interactions of Selective Casein Kinase 1δ Inhibitors
    Mente, Scot
    Arnold, Eric
    Butler, Todd
    Chakrapani, Subramanyam
    Chandrasekaran, Ramalakshmi
    Cherry, Kevin
    DiRico, Ken
    Doran, Angela
    Fisher, Katherine
    Galatsis, Paul
    Green, Michael
    Hayward, Matthew
    Humphrey, John
    Knafels, John
    Li, Jianke
    Liu, Shenping
    Marconi, Michael
    McDonald, Scott
    Ohren, Jeff
    Paradis, Vanessa
    Sneed, Blossom
    Walton, Kevin
    Wager, Travis
    JOURNAL OF MEDICINAL CHEMISTRY, 2013, 56 (17) : 6819 - 6828
  • [36] HYDROPHOBIC LIGAND-PROTEIN INTERACTIONS - BINDING-KINETICS AND IMMUNOCHEMICAL STUDIES ON THE 4S MOUSE PROTEIN
    BARTON, HA
    MARLETTA, MA
    BIOCHEMISTRY, 1988, 27 (08) : 3096 - 3096
  • [37] The role of loop dynamics in the prediction of ligand-protein binding enthalpy
    Cinaroglu, Sueleyman Selim
    Biggin, Philip C. C.
    CHEMICAL SCIENCE, 2023, 14 (24) : 6792 - 6805
  • [38] STATISTICAL EVALUATION OF ALTERNATIVE MODELS - APPLICATION TO LIGAND-PROTEIN BINDING
    SPRAGUE, ED
    LARRABEE, CE
    HALSALL, HB
    ANALYTICAL BIOCHEMISTRY, 1980, 101 (01) : 175 - 181
  • [39] Ligand-protein binding free energy calculations: The case of p38a MAP kinase
    Huang, Yu-ming M.
    Chen, Wei
    Potter, Michael J.
    Chang, Chia-en A.
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2012, 243
  • [40] Modeling ligand-protein association: Diffusing, gating, and intermolecular interactions
    Chang, Chia-en A.
    Kang, Myungshim
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2012, 243