結合運動の構造的決定因子としてのシールドされた水素結合:薬物設計における応用
Peter Schmidtke1, F Javier Luque, James B Murray
1Departament de Fisicoquímica, Facultat de Farmàcia, Universitat de Barcelona, Av. Joan XXIII s/n, 08028 Barcelona, Spain.
Journal of the American Chemical Society
|October 11, 2011
まとめ
埋もれた極性原子を含む,水で遮断された水素結合は,分子相互作用を遅らせる. この発見は,薬物の標的結合動態を予測し,構造動態関係に基づく薬剤設計を最適化するための新しい方法を提供します.
科学分野:
- バイオケミストリー バイオケミストリー
- 構造生物学 構造生物学とは
- 薬理学 薬理学とは
背景:
- 分子相互作用の時間スケールを制御することは,生化学において極めて重要です.
- 構造-運動関係を理解することは,薬物設計,特に薬物標的の複雑な寿命の最適化に不可欠です.
- 分子認識運動を制御する構造的要因に関する現在の知識は限られている.
研究 の 目的:
- 分子認識の運動を制御する構造特性の役割を調査する.
- タンパク質結合部位の構造と分子相互作用の速度との関係を確立する.
- 薬剤開発における構造運動関係に関する予測ツールを開発する.
主な方法:
- タンパク質結合部位に埋もれた極性原子によって形成された,水に遮断された水素結合の分析.
- これらの水素結合の形成と破裂に関連したエネルギー罰則の調査.
- Hsp90阻害剤の実験的熱力学および運動学的データと分子シミュレーションの比較.
主要な成果:
- ほぼ埋もれた極性原子は,通常,水で遮断された水素結合を形成します.
- これらのウォーターシールドされた水素債券は,エネルギー的に罰せられた移行状態のために,より遅い為替レートを表しています.
- ウォーターシールドされた水素結合の存在は,単純な構造分析によって予測できます.
- Hsp90阻害剤の実験データは,これらの結合が運動トラップとしての役割を検証した.
結論:
- 水で遮断された水素結合は,運動の罠として作用し,分子相互作用速度に影響を与えます.
- 埋もれた極性原子の構造分析は,構造-運動関係を予測し,解釈することができます.
- この発見は,構造に基づく薬物発見と薬物標的結合寿命の最適化のための新しいアプローチを提供します.
関連する概念動画
Drug-Receptor Bonds
Drug-receptor bonds are formed through various chemical forces when drugs interact with target cells. Covalent bonds, strong and irreversible, are exemplified by DNA-alkylating anticancer agents that inhibit cell division. However, such irreversible drug binding lacks selectivity and can modify the DNA of the surrounding healthy cells. Covalent binding often contributes to tissue toxicity, as seen with chloroform and paracetamol metabolites binding to the liver, causing hepatotoxicity.
In...
In...
Protein-Drug Binding: Mechanism and Kinetics
Protein-drug binding refers to the interaction between drugs and proteins within the body. This binding process can occur intracellularly, involving drug interactions with enzymes or receptors within cells, or extracellularly, involving plasma proteins in the blood.
Various forces drive these interactions, including hydrogen bonds, hydrophobic interactions, ionic bonds, electrostatic interactions, and van der Waals forces. These bonds enable drugs to bind to specific sites on proteins,...
Various forces drive these interactions, including hydrogen bonds, hydrophobic interactions, ionic bonds, electrostatic interactions, and van der Waals forces. These bonds enable drugs to bind to specific sites on proteins,...
Protein-Drug Binding: Determination Methods
Determining protein-drug binding can be achieved through indirect and direct methods, each providing valuable insights into the interaction between proteins and drugs.
Indirect methods involve isolating the bound drug from its free form in biological samples such as blood, serum, or plasma. These techniques aim to measure the percentage of drugs bound to proteins. Equilibrium dialysis is a commonly used method where the free drug concentration at equilibrium is measured by separating the bound...
Indirect methods involve isolating the bound drug from its free form in biological samples such as blood, serum, or plasma. These techniques aim to measure the percentage of drugs bound to proteins. Equilibrium dialysis is a commonly used method where the free drug concentration at equilibrium is measured by separating the bound...
Noncovalent Attractions in Biomolecules
Noncovalent attractions are associations within and between molecules that influence the shape and structural stability of complexes. These interactions differ from covalent bonding in that they do not involve sharing of electrons.
Four types of noncovalent interactions are hydrogen bonds, van der Waals forces, ionic bonds, and hydrophobic interactions.
Hydrogen bonding results from the electrostatic attraction of a hydrogen atom covalently bonded to a strong-electronegative atom like oxygen,...
Four types of noncovalent interactions are hydrogen bonds, van der Waals forces, ionic bonds, and hydrophobic interactions.
Hydrogen bonding results from the electrostatic attraction of a hydrogen atom covalently bonded to a strong-electronegative atom like oxygen,...
The Equilibrium Binding Constant and Binding Strength
The equilibrium binding constant (Kb) quantifies the strength of a protein-ligand interaction. Kb can be calculated as follows when the reaction is at equilibrium:
The Equilibrium Binding Constant and Binding Strength
The equilibrium binding constant (Kb) quantifies the strength of a protein-ligand interaction. Kb can be calculated as follows when the reaction is at equilibrium:
