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Atomically resolved imaging of the conformations and adsorption geometries of individual β-cyclodextrins with non-contact AFM

Author

Listed:
  • Márkó Grabarics

    (University of Oxford
    University of Oxford)

  • Benjamín Mallada

    (Czech Academy of Sciences
    Palacký University Olomouc)

  • Shayan Edalatmanesh

    (Czech Academy of Sciences
    Palacký University Olomouc)

  • Alejandro Jiménez-Martín

    (Czech Academy of Sciences
    Palacký University Olomouc
    Czech Technical University in Prague)

  • Martin Pykal

    (Palacký University Olomouc)

  • Martin Ondráček

    (Czech Academy of Sciences)

  • Petra Kührová

    (Palacký University Olomouc)

  • Weston B. Struwe

    (University of Oxford
    University of Oxford)

  • Pavel Banáš

    (Palacký University Olomouc)

  • Stephan Rauschenbach

    (University of Oxford
    University of Oxford)

  • Pavel Jelínek

    (Czech Academy of Sciences
    Palacký University Olomouc)

  • Bruno de la Torre

    (Palacký University Olomouc
    CSIC-UNIOVI-PA)

Abstract

Glycans, consisting of covalently linked sugar units, are a major class of biopolymers essential to all known living organisms. To better understand their biological functions and further applications in fields from biomedicine to materials science, detailed knowledge of their structure is essential. However, due to the extraordinary complexity and conformational flexibility of glycans, state-of-the-art glycan analysis methods often fail to provide structural information with atomic precision. Here, we combine electrospray deposition in ultra-high vacuum with non-contact atomic force microscopy and theoretical calculations to unravel the structure of β-cyclodextrin, a cyclic glucose oligomer, with atomic-scale detail. Our results, established on the single-molecule level, reveal the different adsorption geometries and conformations of β-cyclodextrin. The position of individual hydroxy groups and the location of the stabilizing intramolecular H-bonds are deduced from atomically resolved images, enabling the unambiguous assignment of the molecular structure and demonstrating the potential of the method for glycan analysis.

Suggested Citation

  • Márkó Grabarics & Benjamín Mallada & Shayan Edalatmanesh & Alejandro Jiménez-Martín & Martin Pykal & Martin Ondráček & Petra Kührová & Weston B. Struwe & Pavel Banáš & Stephan Rauschenbach & Pavel Jel, 2024. "Atomically resolved imaging of the conformations and adsorption geometries of individual β-cyclodextrins with non-contact AFM," Nature Communications, Nature, vol. 15(1), pages 1-7, December.
  • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-53555-0
    DOI: 10.1038/s41467-024-53555-0
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    References listed on IDEAS

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    1. X. Wu & M. Delbianco & K. Anggara & T. Michnowicz & A. Pardo-Vargas & P. Bharate & S. Sen & M. Pristl & S. Rauschenbach & U. Schlickum & S. Abb & P. H. Seeberger & K. Kern, 2020. "Imaging single glycans," Nature, Nature, vol. 582(7812), pages 375-378, June.
    2. Kota Iwata & Shiro Yamazaki & Pingo Mutombo & Prokop Hapala & Martin Ondráček & Pavel Jelínek & Yoshiaki Sugimoto, 2015. "Chemical structure imaging of a single molecule by atomic force microscopy at room temperature," Nature Communications, Nature, vol. 6(1), pages 1-7, November.
    3. X. Wu & M. Delbianco & K. Anggara & T. Michnowicz & A. Pardo-Vargas & P. Bharate & S. Sen & M. Pristl & S. Rauschenbach & U. Schlickum & S. Abb & P. H. Seeberger & K. Kern, 2020. "Publisher Correction: Imaging single glycans," Nature, Nature, vol. 583(7818), pages 32-32, July.
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