Understanding the disorder of the DNA base cytosine on the Au(111) surface

Kelly, Ross E. A. and Lukas, Maya and Kantorovich, Lev N. and Otero, Roberto and Xu, Wei and Mura, Manuela and Laegsgaard, Erik and Stensgaard, Ivan and Besenbacher, Flemming (2008) Understanding the disorder of the DNA base cytosine on the Au(111) surface. Journal of Chemical Physics, 129 (18). p. 184707. ISSN 0021-9606

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Abstract

Using ultrahigh vacuum scanning tunneling microscopy (STM) and ab initio density functional theory, we have investigated in detail structures formed by cytosine on the Au(111) surface in clean ultrahigh vacuum conditions. In spite of the fact that the ground state of this DNA base on the surface is shown to be an ordered arrangement of cytosine one-dimensional branches (filaments), this structure has never been observed in our STM experiments. Instead, disordered structures are observed, which can be explained by only a few elementary structural motifs: filaments, five- and sixfold rings, which randomly interconnect with each other forming bent chains, T junctions, and nanocages. The latter may have trapped smaller structures inside. The formation of such an unusual assembly is explained by simple kinetic arguments as a liquid-glass transition. © 2008 American Institute of Physics.

Keywords:Density functional theory, DNA, Filaments (lamp), Forming, Genes, Glass transition, Microscopic examination, Nucleic acids, Organic acids, Piezoelectric actuators, Scanning tunneling microscopy, Ultrahigh vacuum, Ab initio, Au(111) surface, Disordered structures, Dna base, Nanocages, Ordered arrangements, Structural motifs, T junctions, Ultrahigh vacuum scanning tunneling microscopies, Vacuum conditions, Vacuum, cytosine, gold, article, chemistry, dimerization, kinetics, nanotechnology, quantum theory, surface property, Cytosine, Gold, Surface Properties
Subjects:F Physical Sciences > F320 Chemical Physics
Divisions:College of Science > School of Mathematics and Physics
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ID Code:16693
Deposited On:13 Feb 2015 10:27

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