Literature DB >> 29760077

Conformations of peptoids in nanosheets result from the interplay of backbone energetics and intermolecular interactions.

John R Edison1, Ryan K Spencer1,2, Glenn L Butterfoss3, Benjamin C Hudson4, Allon I Hochbaum2, Anant K Paravastu4, Ronald N Zuckermann1, Stephen Whitelam5.   

Abstract

The conformations adopted by the molecular constituents of a supramolecular assembly influence its large-scale order. At the same time, the interactions made in assemblies by molecules can influence their conformations. Here we study this interplay in extended flat nanosheets made from nonnatural sequence-specific peptoid polymers. Nanosheets exist because individual polymers can be linear and untwisted, by virtue of polymer backbone elements adopting alternating rotational states whose twists oppose and cancel. Using molecular dynamics and quantum mechanical simulations, together with experimental data, we explore the design space of flat nanostructures built from peptoids. We show that several sets of peptoid backbone conformations are consistent with their being linear, but the specific combination observed in experiment is determined by a combination of backbone energetics and the interactions made within the nanosheet. Our results provide a molecular model of the peptoid nanosheet consistent with all available experimental data and show that its structure results from a combination of intra- and intermolecular interactions.

Entities:  

Keywords:  2D supramolecular assembly; biomimetic sequence-specific polymers; cis-amide; peptoid secondary structure

Mesh:

Substances:

Year:  2018        PMID: 29760077      PMCID: PMC5984518          DOI: 10.1073/pnas.1800397115

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  21 in total

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Journal:  Proteins       Date:  2008-04

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Authors:  L PAULING; R B COREY
Journal:  Proc Natl Acad Sci U S A       Date:  1951-05       Impact factor: 11.205

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Authors:  L PAULING; R B COREY; H R BRANSON
Journal:  Proc Natl Acad Sci U S A       Date:  1951-04       Impact factor: 11.205

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7.  Tandem Incorporation of Enantiomeric Residues Engenders Discrete Peptoid Structures.

Authors:  Benjamin C Gorske; Emily M Mumford; Rebecca R Conry
Journal:  Org Lett       Date:  2016-05-23       Impact factor: 6.005

8.  Folding of a single-chain, information-rich polypeptoid sequence into a highly ordered nanosheet.

Authors:  Romas Kudirka; Helen Tran; Babak Sanii; Ki Tae Nam; Philip H Choi; Neeraja Venkateswaran; Ritchie Chen; Stephen Whitelam; Ronald N Zuckermann
Journal:  Biopolymers       Date:  2011       Impact factor: 2.505

9.  Kinetics and equilibria of cis/trans isomerization of backbone amide bonds in peptoids.

Authors:  Qiang Sui; Dan Borchardt; Dallas L Rabenstein
Journal:  J Am Chem Soc       Date:  2007-09-07       Impact factor: 15.419

10.  Development and use of an atomistic CHARMM-based forcefield for peptoid simulation.

Authors:  Dina T Mirijanian; Ranjan V Mannige; Ronald N Zuckermann; Stephen Whitelam
Journal:  J Comput Chem       Date:  2013-11-29       Impact factor: 3.376

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  5 in total

1.  Hierarchical supramolecular assembly of a single peptoid polymer into a planar nanobrush with two distinct molecular packing motifs.

Authors:  Jing Sun; Zhiwei Wang; Chenhui Zhu; Meiyao Wang; Zhekun Shi; Yuhan Wei; Xiaohui Fu; Xuesi Chen; Ronald N Zuckermann
Journal:  Proc Natl Acad Sci U S A       Date:  2020-12-01       Impact factor: 11.205

Review 2.  The Diverse World of Foldamers: Endless Possibilities of Self-Assembly.

Authors:  Samuele Rinaldi
Journal:  Molecules       Date:  2020-07-18       Impact factor: 4.411

Review 3.  Biomolecular Assemblies: Moving from Observation to Predictive Design.

Authors:  Corey J Wilson; Andreas S Bommarius; Julie A Champion; Yury O Chernoff; David G Lynn; Anant K Paravastu; Chen Liang; Ming-Chien Hsieh; Jennifer M Heemstra
Journal:  Chem Rev       Date:  2018-10-03       Impact factor: 60.622

4.  Atomic-level engineering and imaging of polypeptoid crystal lattices.

Authors:  Sunting Xuan; Xi Jiang; Ryan K Spencer; Nan K Li; David Prendergast; Nitash P Balsara; Ronald N Zuckermann
Journal:  Proc Natl Acad Sci U S A       Date:  2019-10-21       Impact factor: 11.205

5.  Cyclic Topology Enhancing Structural Ordering and Stability of Comb-Shaped Polypeptoid Thin Films against Melt-Induced Dewetting.

Authors:  Naisheng Jiang; Jianxia Chen; Tianyi Yu; Albert Chao; Liying Kang; Ying Wu; Kangmin Niu; Ruipeng Li; Masafumi Fukuto; Donghui Zhang
Journal:  Macromolecules       Date:  2020-08-25       Impact factor: 5.985

  5 in total

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