Predicting the placement of biomolecular structures on AFM substrates based on electrostatic interactions
書誌事項
- 公開日
- 2023-11-28
- 資源種別
- journal article
- 権利情報
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- https://creativecommons.org/licenses/by/4.0/
- DOI
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- 10.3389/fmolb.2023.1264161
- 公開者
- Frontiers Media SA
説明
<jats:p> Atomic force microscopy (AFM) and high-speed AFM allow direct observation of biomolecular structures and their functional dynamics. Based on scanning the molecular surface of a sample deposited on a supporting substrate by a probing tip, topographic images of its dynamic shape are obtained. Critical to successful AFM observations is a balance between immobilization of the sample while avoiding too strong perturbations of its functional conformational dynamics. Since the sample placement on the supporting substrate cannot be directly controlled in experiments, the relative orientation is <jats:italic>a priori</jats:italic> unknown, and, due to limitations in the spatial resolution of images, difficult to infer from <jats:italic>a posteriori</jats:italic> analysis, thus hampering the interpretation of measurements. We present a method to predict the macromolecular placement of samples based on electrostatic interactions with the AFM substrate and demonstrate applications to HS-AFM observations of the Cas9 endonuclease, an aptamer-protein complex, the Monalysin protein, and the ClpB molecular chaperone. The model also allows predictions of imaging stability taking into account buffer conditions. We implemented the developed method within the freely available BioAFMviewer software package. Predictions based on available structural data can therefore be made even prior to an actual experiment, and the method can be applied for post-experimental analysis of AFM imaging data. </jats:p>
収録刊行物
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- Frontiers in Molecular Biosciences
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Frontiers in Molecular Biosciences 10 2023-11-28
Frontiers Media SA
