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Title: Unveiling Stability Criteria of DNA-Carbon Nanotubes Constructs by Scanning Tunneling Microscopy and Computational Modeling

Abstract

We present a combined approach that relies on computational simulations and scanning tunneling microscopy (STM) measurements to reveal morphological properties and stability criteria of carbon nanotube-DNA (CNT-DNA) constructs. Application of STM allows direct observation of very stable CNT-DNA hybrid structures with the well-defined DNA wrapping angle of 63.4 ° and a coiling period of 3.3 nm. Using force field simulations, we determine how the DNA-CNT binding energy depends on the sequence and binding geometry of a single strand DNA. This dependence allows us to quantitatively characterize the stability of a hybrid structure with an optimal π-stacking between DNA nucleotides and the tube surface and better interpret STM data. Our simulations clearly demonstrate the existence of a very stable DNA binding geometry for (6,5) CNT as evidenced by the presence of a well-defined minimum in the binding energy as a function of an angle between DNA strand and the nanotube chiral vector. This novel approach demonstrates the feasibility of CNT-DNA geometry studies with subnanometer resolution and paves the way towards complete characterization of the structural and electronic properties of drug-delivering systems based on DNA-CNT hybrids as a function of DNA sequence and a nanotube chirality.

Authors:
 [1];  [2];  [3];  [4];  [2];  [4]
  1. Department of Chemistry and Biochemistry, North Dakota State University, Fargo, ND 58108-6050, USA
  2. Los Alamos National Laboratory, Center for Integrated Nanotechnologies, Los Alamos, NM 87545, USA
  3. NIST Center for Nanoscale Science and Technology, Energy Research Group, Gaithersburg, MD 20899, USA
  4. Los Alamos National Laboratory, Center for Integrated Nanotechnologies, Los Alamos, NM 87545, USA, Los Alamos National Laboratory, Theoretical Division, Los Alamos, NM 87545, USA
Publication Date:
Sponsoring Org.:
USDOE
OSTI Identifier:
1197871
Grant/Contract Number:  
AC52-06NA25396
Resource Type:
Published Article
Journal Name:
Journal of Drug Delivery
Additional Journal Information:
Journal Name: Journal of Drug Delivery Journal Volume: 2011; Journal ID: ISSN 2090-3014
Publisher:
Hindawi Publishing Corporation
Country of Publication:
Country unknown/Code not available
Language:
English

Citation Formats

Kilina, Svetlana, Yarotski, Dzmitry A., Talin, A. Alec, Tretiak, Sergei, Taylor, Antoinette J., and Balatsky, Alexander V. Unveiling Stability Criteria of DNA-Carbon Nanotubes Constructs by Scanning Tunneling Microscopy and Computational Modeling. Country unknown/Code not available: N. p., 2011. Web. doi:10.1155/2011/415621.
Kilina, Svetlana, Yarotski, Dzmitry A., Talin, A. Alec, Tretiak, Sergei, Taylor, Antoinette J., & Balatsky, Alexander V. Unveiling Stability Criteria of DNA-Carbon Nanotubes Constructs by Scanning Tunneling Microscopy and Computational Modeling. Country unknown/Code not available. doi:10.1155/2011/415621.
Kilina, Svetlana, Yarotski, Dzmitry A., Talin, A. Alec, Tretiak, Sergei, Taylor, Antoinette J., and Balatsky, Alexander V. Sat . "Unveiling Stability Criteria of DNA-Carbon Nanotubes Constructs by Scanning Tunneling Microscopy and Computational Modeling". Country unknown/Code not available. doi:10.1155/2011/415621.
@article{osti_1197871,
title = {Unveiling Stability Criteria of DNA-Carbon Nanotubes Constructs by Scanning Tunneling Microscopy and Computational Modeling},
author = {Kilina, Svetlana and Yarotski, Dzmitry A. and Talin, A. Alec and Tretiak, Sergei and Taylor, Antoinette J. and Balatsky, Alexander V.},
abstractNote = {We present a combined approach that relies on computational simulations and scanning tunneling microscopy (STM) measurements to reveal morphological properties and stability criteria of carbon nanotube-DNA (CNT-DNA) constructs. Application of STM allows direct observation of very stable CNT-DNA hybrid structures with the well-defined DNA wrapping angle of 63.4 ° and a coiling period of 3.3 nm. Using force field simulations, we determine how the DNA-CNT binding energy depends on the sequence and binding geometry of a single strand DNA. This dependence allows us to quantitatively characterize the stability of a hybrid structure with an optimal π-stacking between DNA nucleotides and the tube surface and better interpret STM data. Our simulations clearly demonstrate the existence of a very stable DNA binding geometry for (6,5) CNT as evidenced by the presence of a well-defined minimum in the binding energy as a function of an angle between DNA strand and the nanotube chiral vector. This novel approach demonstrates the feasibility of CNT-DNA geometry studies with subnanometer resolution and paves the way towards complete characterization of the structural and electronic properties of drug-delivering systems based on DNA-CNT hybrids as a function of DNA sequence and a nanotube chirality.},
doi = {10.1155/2011/415621},
journal = {Journal of Drug Delivery},
number = ,
volume = 2011,
place = {Country unknown/Code not available},
year = {2011},
month = {1}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
DOI: 10.1155/2011/415621

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Works referenced in this record:

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