Literature DB >> 35836017

De novo designed peptides for cellular delivery and subcellular localisation.

Guto G Rhys1, Jessica A Cross2,3, William M Dawson2, Harry F Thompson2,3, Sooruban Shanmugaratnam1, Nigel J Savery3,4, Mark P Dodding3, Birte Höcker5, Derek N Woolfson6,7,8.   

Abstract

Increasingly, it is possible to design peptide and protein assemblies de novo from first principles or computationally. This approach provides new routes to functional synthetic polypeptides, including designs to target and bind proteins of interest. Much of this work has been developed in vitro. Therefore, a challenge is to deliver de novo polypeptides efficiently to sites of action within cells. Here we describe the design, characterisation, intracellular delivery, and subcellular localisation of a de novo synthetic peptide system. This system comprises a dual-function basic peptide, programmed both for cell penetration and target binding, and a complementary acidic peptide that can be fused to proteins of interest and introduced into cells using synthetic DNA. The designs are characterised in vitro using biophysical methods and X-ray crystallography. The utility of the system for delivery into mammalian cells and subcellular targeting is demonstrated by marking organelles and actively engaging functional protein complexes.
© 2022. The Author(s), under exclusive licence to Springer Nature America, Inc.

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Year:  2022        PMID: 35836017     DOI: 10.1038/s41589-022-01076-6

Source DB:  PubMed          Journal:  Nat Chem Biol        ISSN: 1552-4450            Impact factor:   16.174


  54 in total

1.  De novo design of potent and selective mimics of IL-2 and IL-15.

Authors:  Daniel-Adriano Silva; Shawn Yu; Umut Y Ulge; Jamie B Spangler; Kevin M Jude; Carlos Labão-Almeida; Lestat R Ali; Alfredo Quijano-Rubio; Mikel Ruterbusch; Isabel Leung; Tamara Biary; Stephanie J Crowley; Enrique Marcos; Carl D Walkey; Brian D Weitzner; Fátima Pardo-Avila; Javier Castellanos; Lauren Carter; Lance Stewart; Stanley R Riddell; Marion Pepper; Gonçalo J L Bernardes; Michael Dougan; K Christopher Garcia; David Baker
Journal:  Nature       Date:  2019-01-09       Impact factor: 49.962

2.  Design of fast proteolysis-based signaling and logic circuits in mammalian cells.

Authors:  Tina Fink; Jan Lonzarić; Arne Praznik; Tjaša Plaper; Estera Merljak; Katja Leben; Nina Jerala; Tina Lebar; Žiga Strmšek; Fabio Lapenta; Mojca Benčina; Roman Jerala
Journal:  Nat Chem Biol       Date:  2018-12-10       Impact factor: 15.040

Review 3.  The coming of age of de novo protein design.

Authors:  Po-Ssu Huang; Scott E Boyken; David Baker
Journal:  Nature       Date:  2016-09-15       Impact factor: 49.962

Review 4.  A brief history of de novo protein design: minimal, rational, and computational.

Authors:  Derek N Woolfson
Journal:  J Mol Biol       Date:  2021-07-20       Impact factor: 5.469

5.  De novo design of protein logic gates.

Authors:  Zibo Chen; Ryan D Kibler; Andrew Hunt; Florian Busch; Jocelynn Pearl; Mengxuan Jia; Zachary L VanAernum; Basile I M Wicky; Galen Dods; Hanna Liao; Matthew S Wilken; Christie Ciarlo; Shon Green; Hana El-Samad; John Stamatoyannopoulos; Vicki H Wysocki; Michael C Jewett; Scott E Boyken; David Baker
Journal:  Science       Date:  2020-04-03       Impact factor: 47.728

Review 6.  De novo protein design, a retrospective.

Authors:  Ivan V Korendovych; William F DeGrado
Journal:  Q Rev Biophys       Date:  2020-02-11       Impact factor: 5.318

7.  Guiding Biomolecular Interactions in Cells Using de Novo Protein-Protein Interfaces.

Authors:  Abigail J Smith; Franziska Thomas; Deborah Shoemark; Derek N Woolfson; Nigel J Savery
Journal:  ACS Synth Biol       Date:  2019-05-14       Impact factor: 5.110

8.  De novo design of bioactive protein switches.

Authors:  Robert A Langan; Scott E Boyken; Andrew H Ng; Jennifer A Samson; Galen Dods; Alexandra M Westbrook; Taylor H Nguyen; Marc J Lajoie; Zibo Chen; Stephanie Berger; Vikram Khipple Mulligan; John E Dueber; Walter R P Novak; Hana El-Samad; David Baker
Journal:  Nature       Date:  2019-07-24       Impact factor: 49.962

9.  Proof of principle for epitope-focused vaccine design.

Authors:  Bruno E Correia; John T Bates; Rebecca J Loomis; Gretchen Baneyx; Chris Carrico; Joseph G Jardine; Peter Rupert; Colin Correnti; Oleksandr Kalyuzhniy; Vinayak Vittal; Mary J Connell; Eric Stevens; Alexandria Schroeter; Man Chen; Skye Macpherson; Andreia M Serra; Yumiko Adachi; Margaret A Holmes; Yuxing Li; Rachel E Klevit; Barney S Graham; Richard T Wyatt; David Baker; Roland K Strong; James E Crowe; Philip R Johnson; William R Schief
Journal:  Nature       Date:  2014-02-05       Impact factor: 49.962

10.  Multi-input chemical control of protein dimerization for programming graded cellular responses.

Authors:  Glenna Wink Foight; Zhizhi Wang; Cindy T Wei; Per Jr Greisen; Katrina M Warner; Daniel Cunningham-Bryant; Keunwan Park; T J Brunette; William Sheffler; David Baker; Dustin J Maly
Journal:  Nat Biotechnol       Date:  2019-09-09       Impact factor: 54.908

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