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A theoretical study on the chirality detection of serine amino acid based on carbon nanotubes with and without Stone-Wales defects

  • Zeynab Mohammad Hosseini Naveh
  • Mohaddeseh Mehmandoust KhajehdadEmail author
  • Masoud Majidiyan Sarmazdeh
Original Research
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Abstract

In the present study, the interaction of serine (SER) amino acid (AA) with the pristine and defected carbon nanotubes (CNTs) has been investigated by employing the molecular dynamics (MD) and the density functional theory (DFT) approaches. Furthermore, the potential application of CNTs with and without the Stone-Wales (SW) defects in sensing of SER chirality has been studied. Our results confirm that introducing the chiral l and d SERs (LSER and DSER) exerts a significant effect on the electronic and optical properties of the CNTs with and without the SW defect. According to the MD results, it is observed that for all the structures, the obtained minimum distance is among the SER aliphatic segments and the tube atoms. The calculated structural and electronic properties of pristine and defected CNT are in good agreement with the reported research studies. The results indicate that pyramidalization angles (θp) at C atoms are altered in the presence of the SW defects. The overall increment of θp suggests that the reactivity has increased at the defective regions. In the case of CNT with one SW defect (CNTSW1), the central C–C bond of the SW defect is the most chemically reactive site. Our results establish that pristine CNT is a semiconductor when the LSER and DSER are adsorbed (with the band gap of 0.30 eV and 0.32 eV, respectively). The LSER-adsorbing CNT with two SW defects (CNTSW2) is a semiconductor with a reduced band gap (0.41 eV), while the DSER-adsorbing CNTSW2 is an n-type semiconductor (with a band gap of 0.70 eV). The optical properties are inferred from the dielectric functions of the CNTs. The most remarkable result belongs to the CNTSW2; the imaginary part of the CNTSW2 dielectric function can sensitively distinguish the chirality of the SER amino acid.

Keywords

Density functional theory Molecular dynamics simulation Carbon nanotube SER amino acid Chirality Stone-Wales defect Biosensor 

Notes

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  • Zeynab Mohammad Hosseini Naveh
    • 1
  • Mohaddeseh Mehmandoust Khajehdad
    • 2
    Email author
  • Masoud Majidiyan Sarmazdeh
    • 3
  1. 1.Kashmar Higher Education InstituteKashmarIran
  2. 2.Department of PhysicsPayame Noor University (PNU)TehranIran
  3. 3.School of PhysicsDamghan UniversityDamghanIran

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