DNA G-Wire Formation Using an Artificial Peptide is Controlled by Protease Activity
The development of a switching system for guanine nanowire (G-wire) formation by external signals is important for nanobiotechnological applications. Here, we demonstrate a DNA nanostructural switch (G-wire <--> particles) using a designed peptide and a protease. The peptide consists o...
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doaj-0222bbc75a6c449cbf0f08491daf2cc22020-11-25T00:36:42ZengMDPI AGMolecules1420-30492017-11-012211199110.3390/molecules22111991molecules22111991DNA G-Wire Formation Using an Artificial Peptide is Controlled by Protease ActivityKenji Usui0Arisa Okada1Shungo Sakashita2Masayuki Shimooka3Takaaki Tsuruoka4Shu-ichi Nakano5Daisuke Miyoshi6Tsukasa Mashima7Masato Katahira8Yoshio Hamada9Faculty of Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, JapanFaculty of Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, JapanFaculty of Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, JapanFaculty of Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, JapanFaculty of Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, JapanFaculty of Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, JapanFaculty of Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, JapanInstitute of Advanced Energy, Kyoto University, Gokasho, Uji, Kyoto 611-0011, JapanInstitute of Advanced Energy, Kyoto University, Gokasho, Uji, Kyoto 611-0011, JapanFaculty of Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, JapanThe development of a switching system for guanine nanowire (G-wire) formation by external signals is important for nanobiotechnological applications. Here, we demonstrate a DNA nanostructural switch (G-wire <--> particles) using a designed peptide and a protease. The peptide consists of a PNA sequence for inducing DNA to form DNA–PNA hybrid G-quadruplex structures, and a protease substrate sequence acting as a switching module that is dependent on the activity of a particular protease. Micro-scale analyses via TEM and AFM showed that G-rich DNA alone forms G-wires in the presence of Ca2+, and that the peptide disrupted this formation, resulting in the formation of particles. The addition of the protease and digestion of the peptide regenerated the G-wires. Macro-scale analyses by DLS, zeta potential, CD, and gel filtration were in agreement with the microscopic observations. These results imply that the secondary structure change (DNA G-quadruplex <--> DNA/PNA hybrid structure) induces a change in the well-formed nanostructure (G-wire <--> particles). Our findings demonstrate a control system for forming DNA G-wire structures dependent on protease activity using designed peptides. Such systems hold promise for regulating the formation of nanowire for various applications, including electronic circuits for use in nanobiotechnologies.https://www.mdpi.com/1420-3049/22/11/1991designed peptideG-wireG-quadruplexproteasepeptide nucleic acidPNA |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Kenji Usui Arisa Okada Shungo Sakashita Masayuki Shimooka Takaaki Tsuruoka Shu-ichi Nakano Daisuke Miyoshi Tsukasa Mashima Masato Katahira Yoshio Hamada |
spellingShingle |
Kenji Usui Arisa Okada Shungo Sakashita Masayuki Shimooka Takaaki Tsuruoka Shu-ichi Nakano Daisuke Miyoshi Tsukasa Mashima Masato Katahira Yoshio Hamada DNA G-Wire Formation Using an Artificial Peptide is Controlled by Protease Activity Molecules designed peptide G-wire G-quadruplex protease peptide nucleic acid PNA |
author_facet |
Kenji Usui Arisa Okada Shungo Sakashita Masayuki Shimooka Takaaki Tsuruoka Shu-ichi Nakano Daisuke Miyoshi Tsukasa Mashima Masato Katahira Yoshio Hamada |
author_sort |
Kenji Usui |
title |
DNA G-Wire Formation Using an Artificial Peptide is Controlled by Protease Activity |
title_short |
DNA G-Wire Formation Using an Artificial Peptide is Controlled by Protease Activity |
title_full |
DNA G-Wire Formation Using an Artificial Peptide is Controlled by Protease Activity |
title_fullStr |
DNA G-Wire Formation Using an Artificial Peptide is Controlled by Protease Activity |
title_full_unstemmed |
DNA G-Wire Formation Using an Artificial Peptide is Controlled by Protease Activity |
title_sort |
dna g-wire formation using an artificial peptide is controlled by protease activity |
publisher |
MDPI AG |
series |
Molecules |
issn |
1420-3049 |
publishDate |
2017-11-01 |
description |
The development of a switching system for guanine nanowire (G-wire) formation by external signals is important for nanobiotechnological applications. Here, we demonstrate a DNA nanostructural switch (G-wire <--> particles) using a designed peptide and a protease. The peptide consists of a PNA sequence for inducing DNA to form DNA–PNA hybrid G-quadruplex structures, and a protease substrate sequence acting as a switching module that is dependent on the activity of a particular protease. Micro-scale analyses via TEM and AFM showed that G-rich DNA alone forms G-wires in the presence of Ca2+, and that the peptide disrupted this formation, resulting in the formation of particles. The addition of the protease and digestion of the peptide regenerated the G-wires. Macro-scale analyses by DLS, zeta potential, CD, and gel filtration were in agreement with the microscopic observations. These results imply that the secondary structure change (DNA G-quadruplex <--> DNA/PNA hybrid structure) induces a change in the well-formed nanostructure (G-wire <--> particles). Our findings demonstrate a control system for forming DNA G-wire structures dependent on protease activity using designed peptides. Such systems hold promise for regulating the formation of nanowire for various applications, including electronic circuits for use in nanobiotechnologies. |
topic |
designed peptide G-wire G-quadruplex protease peptide nucleic acid PNA |
url |
https://www.mdpi.com/1420-3049/22/11/1991 |
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