Computational studies of a protein-based nanoactuator for nanogripping applications

Gaurav Sharma, Constantinos Mavroidis, Kaushal Rege, Martin L. Yarmush, David Budil

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

The design hypothesis, architectures, and computational modeling of a novel peptide-based nanoactuator are presented in this paper. We engineered the ?±-helical coiled-coil portion of the yeast transcriptional activator peptide called GCN4 to obtain an environmentally responsive nanoactuator. The dimeric coiled-coil peptide consists of two identical approximately 4.5 nm long and approximately 3 nm wide polypeptide chains. The actuation mechanism depends on the modification of electrostatic charges along the peptide by varying the pH of the solution resulting in the reversible movement of helices and, therefore, creating the motion of an actuator. Using molecular dynamics simulations we showed that pH changes led to a reversible opening of up to 1.5 nm which is approximately 150% of the initial separation of the nanoactuator. We also investigated the forces generated by the nanoactuator upon pH actuation, using a new method based on a modified steered molecular dynamics technique. Owing to its open and close motion resembling that of tweezers, the new nanoactuator can potentially be used as a nanogripper in various nanomanipulation tasks such as detection and removal of heavy metal ions during nanofabrication processes or as a molecular switch.

Original languageEnglish (US)
Pages (from-to)421-435
Number of pages15
JournalInternational Journal of Robotics Research
Volume28
Issue number4
DOIs
StatePublished - Apr 2009

Fingerprint

Peptides
Proteins
Protein
Coil
Molecular dynamics
Nanofabrication
Heavy Metals
Motion
Computational Modeling
Polypeptides
Helix
Heavy ions
Nanotechnology
Molecular Dynamics
Yeast
Electrostatics
Molecular Dynamics Simulation
Heavy metals
Metal ions
Actuator

Keywords

  • Bio-nanotechnology
  • Molecular dynamics
  • Nanorobotics
  • Protein engineering

ASJC Scopus subject areas

  • Electrical and Electronic Engineering
  • Mechanical Engineering
  • Software
  • Artificial Intelligence
  • Applied Mathematics
  • Modeling and Simulation

Cite this

Computational studies of a protein-based nanoactuator for nanogripping applications. / Sharma, Gaurav; Mavroidis, Constantinos; Rege, Kaushal; Yarmush, Martin L.; Budil, David.

In: International Journal of Robotics Research, Vol. 28, No. 4, 04.2009, p. 421-435.

Research output: Contribution to journalArticle

Sharma, Gaurav ; Mavroidis, Constantinos ; Rege, Kaushal ; Yarmush, Martin L. ; Budil, David. / Computational studies of a protein-based nanoactuator for nanogripping applications. In: International Journal of Robotics Research. 2009 ; Vol. 28, No. 4. pp. 421-435.
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