Literature DB >> 30281290

Biomolecular Assemblies: Moving from Observation to Predictive Design.

Corey J Wilson1, Andreas S Bommarius1,2, Julie A Champion1, Yury O Chernoff3,4, David G Lynn5, Anant K Paravastu1, Chen Liang5, Ming-Chien Hsieh5, Jennifer M Heemstra5,6.   

Abstract

Biomolecular assembly is a key driving force in nearly all life processes, providing structure, information storage, and communication within cells and at the whole organism level. These assembly processes rely on precise interactions between functional groups on nucleic acids, proteins, <span class="Chemical">carbohydrates, and small molecules, and can be fine-tuned to span a range of time, length, and complexity scales. Recognizing the power of these motifs, researchers have sought to emulate and engineer biomolecular assemblies in the laboratory, with goals ranging from modulating cellular function to the creation of new <span class="Chemical">polymeric materials. In most cases, engineering efforts are inspired or informed by understanding the structure and properties of naturally occurring assemblies, which has in turn fueled the development of predictive models that enable computational design of novel assemblies. This Review will focus on selected examples of protein assemblies, highlighting the story arc from initial discovery of an assembly, through initial engineering attempts, toward the ultimate goal of predictive design. The aim of this Review is to highlight areas where significant progress has been made, as well as to outline remaining challenges, as solving these challenges will be the key that unlocks the full power of biomolecules for advances in technology and medicine.

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Year:  2018        PMID: 30281290      PMCID: PMC6650774          DOI: 10.1021/acs.chemrev.8b00038

Source DB:  PubMed          Journal:  Chem Rev        ISSN: 0009-2665            Impact factor:   60.622


  561 in total

1.  Catalytic biomaterials: engineering organophosphate hydrolase to form self-assembling enzymatic hydrogels.

Authors:  Hoang D Lu; Ian R Wheeldon; Scott Banta
Journal:  Protein Eng Des Sel       Date:  2010-05-10       Impact factor: 1.650

2.  MaP peptides: programming the self-assembly of peptide-based mesoscopic matrices.

Authors:  Maxim G Ryadnov; Derek N Woolfson
Journal:  J Am Chem Soc       Date:  2005-09-07       Impact factor: 15.419

3.  The synthetic polypentapeptide of elastin coacervates and forms filamentous aggregates.

Authors:  D W Urry; M M Long; B A Cox; T Ohnishi; L W Mitchell; M Jacobs
Journal:  Biochim Biophys Acta       Date:  1974-12-18

4.  Prion induction involves an ancient system for the sequestration of aggregated proteins and heritable changes in prion fragmentation.

Authors:  Jens Tyedmers; Sebastian Treusch; Jijun Dong; J Michael McCaffery; Brooke Bevis; Susan Lindquist
Journal:  Proc Natl Acad Sci U S A       Date:  2010-04-26       Impact factor: 11.205

Review 5.  Silk-based biomaterials.

Authors:  Gregory H Altman; Frank Diaz; Caroline Jakuba; Tara Calabro; Rebecca L Horan; Jingsong Chen; Helen Lu; John Richmond; David L Kaplan
Journal:  Biomaterials       Date:  2003-02       Impact factor: 12.479

6.  An engineered epigenetic transgene switch in mammalian cells.

Authors:  Beat P Kramer; Alessandro Usseglio Viretta; Marie Daoud-El-Baba; Dominique Aubel; Wilfried Weber; Martin Fussenegger
Journal:  Nat Biotechnol       Date:  2004-06-06       Impact factor: 54.908

Review 7.  Prion agent diversity and species barrier.

Authors:  Vincent Béringue; Jean-Luc Vilotte; Hubert Laude
Journal:  Vet Res       Date:  2008-06-03       Impact factor: 3.683

8.  Protein-only transmission of three yeast prion strains.

Authors:  Chih-Yen King; Ruben Diaz-Avalos
Journal:  Nature       Date:  2004-03-18       Impact factor: 49.962

9.  Genesis of tramsmissible protein states via deformed templating.

Authors:  Natallia Makarava; Ilia V Baskakov
Journal:  Prion       Date:  2012-07-01       Impact factor: 3.931

10.  Synthetic Biology Platform for Sensing and Integrating Endogenous Transcriptional Inputs in Mammalian Cells.

Authors:  Bartolomeo Angelici; Erik Mailand; Benjamin Haefliger; Yaakov Benenson
Journal:  Cell Rep       Date:  2016-08-18       Impact factor: 9.423

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  14 in total

1.  Characterizing aggregate growth and morphology of alanine-rich polypeptides as a function of sequence chemistry and solution temperature from scattering, spectroscopy, and microscopy.

Authors:  Bradford Paik; Cesar Calero-Rubio; Jee Young Lee; Xinqiao Jia; Kristi L Kiick; Christopher J Roberts
Journal:  Biophys Chem       Date:  2020-09-25       Impact factor: 2.352

Review 2.  Designer Self-Assembling Peptide Hydrogels to Engineer 3D Cell Microenvironments for Cell Constructs Formation and Precise Oncology Remodeling in Ovarian Cancer.

Authors:  Zehong Yang; Hongyan Xu; Xiaojun Zhao
Journal:  Adv Sci (Weinh)       Date:  2020-03-20       Impact factor: 16.806

Review 3.  Application of yeast to studying amyloid and prion diseases.

Authors:  Yury O Chernoff; Anastasia V Grizel; Aleksandr A Rubel; Andrew A Zelinsky; Pavithra Chandramowlishwaran; Tatiana A Chernova
Journal:  Adv Genet       Date:  2020-05-04       Impact factor: 1.944

Review 4.  Protein Design: From the Aspect of Water Solubility and Stability.

Authors:  Rui Qing; Shilei Hao; Eva Smorodina; David Jin; Arthur Zalevsky; Shuguang Zhang
Journal:  Chem Rev       Date:  2022-08-03       Impact factor: 72.087

5.  Polyaniline Functionalized Peptide Self-Assembled Conductive Hydrogel for 3D Cell Culture.

Authors:  Jieling Li; Yan Xue; Anhe Wang; Shaonan Tian; Qi Li; Shuo Bai
Journal:  Gels       Date:  2022-06-13

6.  Redefining Protein Interfaces within Protein Single Crystals with DNA.

Authors:  Benjamin E Partridge; Peter H Winegar; Zhenyu Han; Chad A Mirkin
Journal:  J Am Chem Soc       Date:  2021-06-05       Impact factor: 16.383

7.  Threading carbon nanotubes through a self-assembled nanotube.

Authors:  Mingyang Ji; McKensie L Mason; David A Modarelli; Jon R Parquette
Journal:  Chem Sci       Date:  2019-08-01       Impact factor: 9.825

8.  Diverse protein assembly driven by metal and chelating amino acids with selectivity and tunability.

Authors:  Minwoo Yang; Woon Ju Song
Journal:  Nat Commun       Date:  2019-12-05       Impact factor: 14.919

9.  Redox responsive activity regulation in exceptionally stable supramolecular assembly and co-assembly of a protein.

Authors:  Saptarshi Chakraborty; Rajesh Khamrui; Suhrit Ghosh
Journal:  Chem Sci       Date:  2020-11-17       Impact factor: 9.825

Review 10.  Yeast Models for Amyloids and Prions: Environmental Modulation and Drug Discovery.

Authors:  Tatiana A Chernova; Yury O Chernoff; Keith D Wilkinson
Journal:  Molecules       Date:  2019-09-18       Impact factor: 4.411

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