アニゾトロプ的小幅ペプチド平面の動態は,残留二極結合からのタンパク質に起因する
Pau Bernadó1, Martin Blackledge
1Institut de Biologie Structurale Jean-Pierre Ebel, UJF-CNRS-CEA, 41 rue Jules Horowitz, 38027 Grenoble Cedex, France.
Journal of the American Chemical Society
|April 15, 2004
まとめ
小幅のタンパク質ダイナミクスは,残留二極結合 (RDC) に著しく影響する. ガウス軸変動 (GAF) モーションを組み込むことは,アライメントテンソール解析を改善し,他のNMR方法によって容易に検出できないバックボーンダイナミクスを明らかにします.
科学分野:
- 構造生物学 構造生物学とは
- 核磁共振 (NMR) スペクトロスコピー
- コンピューティング・バイオフィジックス
背景:
- 残留二極結合 (RDC) は,タンパク質の動力学に敏感である.
- アニゾトロピックペプチド平面運動は,RDC測定に影響を与える可能性があります.
- ガウス軸変動 (GAF) は,タンパク質の骨幹の動態を説明する.
研究 の 目的:
- RDCsに対する小幅アニソトロピックペプチド平面運動の影響を調査する.
- RDC分析にGAF運動を組み込むための分析方法を開発する.
- タンパク質の二次構造とループにおけるGAFの平均振幅を決定する.
主な方法:
- GAF運動を含む平均されたN-(N) H RDCsの分析的記述を開発しました.
- 組み込みの運動幅度 (シグマ) は,アライナメントテンソール解析の追加のパラメータとして.
- 5つのタンパク質とリゾーザイム構造からの実験的なN-(N) H RDCデータにこの方法を適用しました.
主要な成果:
- GAFの動きは,ペプチド平面の方向性と運動振幅に依存して,RDCの平均化に大きく影響します.
- 二次構造の平均GAF振幅 (シグマ) は14.4度から17.0度であった.
- ループ領域は,リゾジームで20度以上のシグマ (av) を示し,異なる結晶解像度で堅実な結果を示した.
結論:
- GAFモデルは,アライメントテンソールの大きさのより正確な定義を提供します.
- この方法は,アクセス可能なNMRデータを用いて,平均的な小さな振幅のタンパク質の骨幹運動を検出します.
- GAF運動分析は,他の技術で簡単にサンプリングできない時間スケールでのタンパク質動力学に関する洞察を提供します.
関連する概念動画
Mechanical Protein Functions
Proteins perform many mechanical functions in a cell. These proteins can be classified into two general categories- proteins that generate mechanical forces and proteins that are subjected to mechanical forces. Proteins providing mechanical support to the structure of the cell, such as keratin, are subjected to mechanical force, whereas proteins involved in cell movement and transport of molecules across cell membranes, such as an ion pump, are examples of generating mechanical force.
Mechanisms of Membrane-bending
The living membranes are flexible due to their fluid mosaic nature; however, their bending into different shapes is an active process regulated by specific lipids and proteins. The membrane bending can be transient as seen in vesicles or stable for a long time as in microvilli. Cells regulate the size, location, and duration of the membrane curvature.
Membrane bending can happen due to intrinsic changes in lipid composition or extrinsic association with different proteins. The proteins involved...
Membrane bending can happen due to intrinsic changes in lipid composition or extrinsic association with different proteins. The proteins involved...
Mechanical Protein Function
Proteins perform many mechanical functions in a cell. These proteins can be classified into two general categories- proteins that generate mechanical forces and proteins that are subjected to mechanical forces. Proteins providing mechanical support to the structure of the cell, such as keratin, are subjected to mechanical force, whereas proteins involved in cell movement and transport of molecules across cell membranes, such as an ion pump, are examples of generating mechanical force.
Non-conservative Forces
Non-conservative forces are dissipative forces such as friction or air resistance. These forces take energy away from a system as it progresses. Unlike conservative forces, non-conservative forces do not have potential energy associated with them. This is because the energy is lost to the system and cannot be turned into useful work later.
Also unlike their conservative counterparts, they are path-dependent; where the object starts and stops does matter. For example, a grinding wheel applies a...
Also unlike their conservative counterparts, they are path-dependent; where the object starts and stops does matter. For example, a grinding wheel applies a...
Force and Potential Energy in One Dimension
Force can be calculated from the expression for potential energy, which is a function of position. The component of a conservative force, in a particular direction, equals the negative of the derivative of the corresponding potential energy with respect to the displacement in that direction. For regions where potential energy changes rapidly with displacement, the work done and force is maximum. Also, when force is applied along the positive coordinate axis, the potential energy decreases with...
Cell-matrix's Response to Mechanical Forces
In animal cells, the extracellular matrix allows cells within tissues to withstand external stresses and transmits signals from the outside of the cell to the inside. The extracellular matrix is extensive, and its composition varies between different types of tissues. For example, the reticular fibers and ground substance make up the ECM in loose connective tissue, while collagen and bone minerals make up the ECM of bone tissue.
Anchoring junctions mechanically attach a cell to the...
Anchoring junctions mechanically attach a cell to the...


