Peptide Assembly Directed and Quantified Using Megadalton DNA Nanostructures.

ACS Nano
Juan JinAndrew J Turberfield

Abstract

In nature, co-assembly of polypeptides, nucleic acids, and polysaccharides is used to create functional supramolecular structures. Here, we show that DNA nanostructures can be used to template interactions between peptides and to enable the quantification of multivalent interactions that would otherwise not be observable. Our functional building blocks are peptide-oligonucleotide conjugates comprising de novo designed dimeric coiled-coil peptides covalently linked to oligonucleotide tags. These conjugates are incorporated in megadalton DNA origami nanostructures and direct nanostructure association through peptide-peptide interactions. Free and bound nanostructures can be counted directly from electron micrographs, allowing estimation of the dissociation constants of the peptides linking them. Results for a single peptide-peptide interaction are consistent with the measured solution-phase free energy; DNA nanostructures displaying multiple peptides allow the effects of polyvalency to be probed. This use of DNA nanostructures as identifiers allows the binding strengths of homo- and heterodimeric peptide combinations to be measured in a single experiment and gives access to dissociation constants that are too low to be quantified...Continue Reading

References

May 15, 2002·The Journal of Peptide Research : Official Journal of the American Peptide Society·J R Litowski, R S Hodges
Jan 24, 2003·Nature·Nadrian C Seeman
Dec 25, 2003·Journal of the American Chemical Society·Pavel I Kitov, David R Bundle
Oct 1, 1993·Current Biology : CB·E K O'SheaP S Kim
Apr 20, 2005·Advances in Protein Chemistry·Andrei N Lupas, Markus Gruber
Apr 20, 2005·Advances in Protein Chemistry·Derek N Woolfson
Mar 17, 2006·Nature·Paul W K Rothemund
Jul 1, 1981·Proceedings of the National Academy of Sciences of the United States of America·W P Jencks
Nov 4, 2006·IEEE Transactions on Visualization and Computer Graphics·Marco TariniClaudio Montani
Jul 23, 2008·Current Opinion in Structural Biology·Kevin ChannonDerek N Woolfson
May 22, 2009·Nature·Shawn M DouglasWilliam M Shih
Jun 18, 2009·Nucleic Acids Research·Shawn M DouglasWilliam M Shih
Sep 15, 2009·Protein Expression and Purification·Penghua ZhangShuang-yong Xu
Dec 17, 2009·Nature Biotechnology·Robert Carlson
Jan 15, 2011·Journal of Peptide Science : an Official Publication of the European Peptide Society·Helena Gradišar, Roman Jerala
Mar 2, 2011·Nature Methods·Carlos Ernesto CastroHendrik Dietz
May 20, 2011·Chemical Society Reviews·Thomas TørringKurt V Gothelf
Nov 8, 2011·Nature Nanotechnology·Andre V PinheiroHao Yan
May 9, 2013·ACS Synthetic Biology·Jordan M FletcherDerek N Woolfson
Jul 17, 2014·Journal of the American Chemical Society·Fei ZhangHao Yan
Oct 23, 2014·Journal of the American Chemical Society·Christopher Negron, Amy E Keating
Oct 25, 2014·Science·Andrew R ThomsonDerek N Woolfson
Mar 19, 2015·Biopolymers·Lynne ReganCorey S O'Hern
Jun 21, 2015·Current Opinion in Structural Biology·Derek N WoolfsonChristopher W Wood
May 28, 2016·Science·Rémi VenezianoMark Bathe
Sep 16, 2016·Nature·Po-Ssu HuangDavid Baker
Nov 26, 2016·Trends in Biochemical Sciences·Andrei N Lupas, Jens Bassler
Dec 28, 2016·ACS Chemical Biology·Jordan M FletcherDerek N Woolfson
Jan 20, 2017·Sub-cellular Biochemistry·Derek N Woolfson
Jan 20, 2017·Sub-cellular Biochemistry·Andrei N LupasStanislaw Dunin-Horkawicz
Mar 25, 2017·Science·Florian Praetorius, Hendrik Dietz
Apr 7, 2017·Chemistry : a European Journal·Chenguang LouJesper Wengel
Sep 28, 2017·Journal of the American Chemical Society·Tao JiangYonggang Ke
Nov 1, 2017·Nucleic Acids Research·Anja Henning-KnechtelMazin Magzoub
Dec 9, 2017·Nature·Florian PraetoriusHendrik Dietz
Dec 9, 2017·Nature·Klaus F WagenbauerHendrik Dietz
Feb 8, 2018·Current Opinion in Structural Biology·Hans Adrian BunzelDonald Hilvert
Apr 7, 2018·Science·Kai ChenFrances H Arnold
May 29, 2018·Nature Nanotechnology·Evan SpruijtHagan Bayley

❮ Previous
Next ❯

Citations

Oct 10, 2020·Nanotechnology·Tao Zhang
Dec 12, 2020·Chemical Society Reviews·Gezhi KongWeihong Tan
Jan 6, 2021·Soft Matter·Jonah ProcykPetr Šulc
Jan 16, 2021·Small·Sebastian Loescher, Andreas Walther
Dec 17, 2020·International Journal of Molecular Sciences·Sayuri L HigashiMasato Ikeda
Aug 21, 2020·Trends in Biotechnology·Joshua B McCluskeyDominic J Glover
Feb 23, 2021·Advanced Nanobiomed Research·David M Smith, Adrian Keller
Feb 23, 2021·Advanced Functional Materials·So Yeon AhnSoong Ho Um
Apr 30, 2021·Chemistry : a European Journal·Niall M McLoughlinTom N Grossmann
Jun 3, 2021·Nanomaterials·Armando Hernandez-Garcia
Mar 7, 2020·Biochemistry·Caitlin L EdgellDerek N Woolfson
Dec 11, 2019·Journal of the American Chemical Society·Alex BuchbergerNicholas Stephanopoulos
Nov 4, 2021·Science Robotics·Gadiel SaperHenry Hess
Nov 17, 2021·Journal of the American Chemical Society·Yan LiBaoquan Ding

❮ Previous
Next ❯

Methods Mentioned

BETA
transmission electron microscopy
circular dichroism
electrophoresis
electron microscopy
acetylations

Software Mentioned

CanDo
QuteMol
ISAMBARD
caDNAno
OriginPro

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.