溶液,固体状態,およびHsp90結合部位におけるリガンド構成の関係:ゲルダナミシンとラジチコル
Pahk Thepchatri1, Tomasso Eliseo, Daniel O Cicero
1Department of Chemistry, Emory University, Atlanta, Georgia 30322, USA.
Journal of the American Chemical Society
|February 28, 2007
まとめ
溶液中の分子柔軟性が薬剤結合にどのように影響するかを理解することは極めて重要です. この研究は,溶液構成が熱ショックタンパク質90 (Hsp90) 阻害剤の薬物結合姿勢を正確に予測することを示しています.
科学分野:
- 分子生物学は分子生物学である.
- 構造生物学 構造生物学とは
- コンピューティング・ケミストリー
背景:
- 薬物標的の相互作用を予測することは,分子のダイナミックな性質のために困難です.
- 受容体環境は,リガンド構成に大きく影響し,生物活性構成の予測を複雑にします.
- 熱ショックタンパク質90 (Hsp90) は,がん治療の重要な標的であり,そのリガンド結合を理解することは極めて重要です.
研究 の 目的:
- 溶液中の分子構成組が,タンパク質結合のためのその生物活性構成を予測できるかどうかを調査する.
- 実験的方法を用いてゲルダナミシンとラジチコルの生物活性コンフォマーを決定する.
- これらの溶液形状をHsp90構造にドッキングすることによって検証する.
主な方法:
- 分子集合を分析するために溶液中の分子柔軟性 (NAMFIS) のNMR分析法を用いた.
- 分解されたNMRスペクトルで,個々の形状と溶液中のその集団を特定します.
- GLIDEドッキングとMM-GBSAスコアリングを用いて,特定されたコンフォマーの拘束姿勢を予測した.
主要な成果:
- CDCl3溶液中のゲルダナミシン (4%の人口) とラジチコル (21%の人口) の特定された生物活性コンフォマー.
- これらのNAMFIS由来コンフォームは,Hsp90構造にドッキングされると,実験的に決定された結合姿勢を成功裏に再現しました.
- タンパク質-リガンドの相互作用を予測するための溶液状態構成分析の有用性を実証した.
結論:
- 溶液中の分子のコンフォームアンサンブルには,タンパク質結合のための活力のある候補が含まれています.
- NAMFIS 方法は,薬剤発見に関連する生物活性構造を効果的に識別します.
- 溶液由来コンフォームの計算式ドッキングは,定義された受容体構造がなくても,薬物結合ポーズを予測するための正確なアプローチを提供します.
関連する概念動画
Ligand Binding Sites
Proteins are dynamic macromolecules that carry out a wide variety of essential processes; however, the activities of most proteins depend on their interactions with other molecules or ions, known as ligands.
Protein-ligand interactions are quite specific; even though numerous potential ligands surround a cellular protein at any given time, only a particular ligand can bind to that protein. Moreover, a ligand binds only to a dedicated area on the surface of the protein, known as the...
Protein-ligand interactions are quite specific; even though numerous potential ligands surround a cellular protein at any given time, only a particular ligand can bind to that protein. Moreover, a ligand binds only to a dedicated area on the surface of the protein, known as the...
Ligand Binding Sites
Proteins are dynamic macromolecules that carry out a wide variety of essential processes; however, the activities of most proteins depend on their interactions with other molecules or ions, known as ligands.
Protein-ligand interactions are quite specific; even though numerous potential ligands surround a cellular protein at any given time, only a particular ligand can bind to that protein. Moreover, a ligand binds only to a dedicated area on the surface of the protein, known as the...
Protein-ligand interactions are quite specific; even though numerous potential ligands surround a cellular protein at any given time, only a particular ligand can bind to that protein. Moreover, a ligand binds only to a dedicated area on the surface of the protein, known as the...
Ligand Binding and Linkage
Allosteric proteins have more than one ligand binding site; the binding of a ligand to any of these sites influences the binding of ligands to the other sites. When a protein is allosteric, its binding sites are called coupled or linked. In the case of enzymes, the site that binds to the substrate is known as the active site and the other site is known as the regulatory site. When a ligand binds to the regulatory site, this leads to conformational changes in the protein that can influence the...
Cooperative Allosteric Transitions
Cooperative allosteric transitions can occur in multimeric proteins, where each subunit of the protein has its own ligand-binding site. When a ligand binds to any of these subunits, it triggers a conformational change that affects the binding sites in the other subunits; this can change the affinity of the other sites for their respective ligands. The ability of the protein to change the shape of its binding site is attributed to the presence of a mix of flexible and stable segments in the...
Cooperative Allosteric Transitions
Cooperative allosteric transitions can occur in multimeric proteins, where each subunit of the protein has its own ligand-binding site. When a ligand binds to any of these subunits, it triggers a conformational change that affects the binding sites in the other subunits; this can change the affinity of the other sites for their respective ligands. The ability of the protein to change the shape of its binding site is attributed to the presence of a mix of flexible and stable segments in the...
The Two-State Receptor Model
The two-state receptor model explains a drug's interaction with receptors, such as G protein-coupled receptors and ligand-gated ion channels, to induce or inhibit a biological response. When no natural ligands are present, a receptor exists in an equilibrium of inactive (Ri) and active (Ra) conformations. The inactive form does not produce a response, while the active form generates a basal effect known as constitutive activity.
The binding affinity of a drug determines its interaction with one...
The binding affinity of a drug determines its interaction with one...

