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Chemical structure imaging of a single molecule by atomic force microscopy at room temperature

Author

Listed:
  • Kota Iwata

    (Graduate School of Engineering, Osaka University)

  • Shiro Yamazaki

    (The Institute of Scientific and Industrial Research, Osaka University)

  • Pingo Mutombo

    (Institute of Physics, Academy of Sciences of the Czech Republic)

  • Prokop Hapala

    (Institute of Physics, Academy of Sciences of the Czech Republic)

  • Martin Ondráček

    (Institute of Physics, Academy of Sciences of the Czech Republic)

  • Pavel Jelínek

    (Graduate School of Engineering, Osaka University
    Institute of Physics, Academy of Sciences of the Czech Republic)

  • Yoshiaki Sugimoto

    (Graduate School of Engineering, Osaka University
    University of Tokyo)

Abstract

Atomic force microscopy is capable of resolving the chemical structure of a single molecule on a surface. In previous research, such high resolution has only been obtained at low temperatures. Here we demonstrate that the chemical structure of a single molecule can be clearly revealed even at room temperature. 3,4,9,10-perylene tetracarboxylic dianhydride, which is strongly adsorbed onto a corner-hole site of a Si(111)–(7 × 7) surface in a bridge-like configuration is used for demonstration. Force spectroscopy combined with first-principle calculations clarifies that chemical structures can be resolved independent of tip reactivity. We show that the submolecular contrast over a central part of the molecule is achieved in the repulsive regime due to differences in the attractive van der Waals interaction and the Pauli repulsive interaction between different sites of the molecule.

Suggested Citation

  • 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.
    • Handle: RePEc:nat:natcom:v:6:y:2015:i:1:d:10.1038_ncomms8766
    DOI: 10.1038/ncomms8766
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    Cited by:

    1. Jacek R. Osiecki & Shozo Suto & Arunabhiram Chutia, 2022. "Periodic corner holes on the Si(111)-7×7 surface can trap silver atoms," Nature Communications, Nature, vol. 13(1), pages 1-10, December.
    2. 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.
    3. Youngwook Park & Ikutaro Hamada & Adnan Hammud & Takashi Kumagai & Martin Wolf & Akitoshi Shiotari, 2024. "Atomic-precision control of plasmon-induced single-molecule switching in a metal–semiconductor nanojunction," Nature Communications, Nature, vol. 15(1), pages 1-9, December.

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