Pair your accounts.

Export articles to Mendeley

Get article recommendations from ACS based on references in your Mendeley library.

Pair your accounts.

Export articles to Mendeley

Get article recommendations from ACS based on references in your Mendeley library.

You’ve supercharged your research process with ACS and Mendeley!

STEP 1:
Click to create an ACS ID

Please note: If you switch to a different device, you may be asked to login again with only your ACS ID.

Please note: If you switch to a different device, you may be asked to login again with only your ACS ID.

Please note: If you switch to a different device, you may be asked to login again with only your ACS ID.

MENDELEY PAIRING EXPIRED
Your Mendeley pairing has expired. Please reconnect
ACS Publications. Most Trusted. Most Cited. Most Read
Protein Folding with Implicit Crowders: A Study of Conformational States Using the Wang−Landau Method

OR SEARCH CITATIONS

My Activity
Publications
CONTENT TYPES

Figure 1Loading Img
Download Hi-Res ImageDownload to MS-PowerPointCite This:J. Phys. Chem. B 2011, 115, 9, 2006-2013
    Article

    Protein Folding with Implicit Crowders: A Study of Conformational States Using the Wang−Landau Method
    Click to copy article linkArticle link copied!

    View Author Information
    Department of Physics, Drexel University, Philadelphia, Pennsylvania 19104, United States
    *E-mail: [email protected]
    Other Access Options

    The Journal of Physical Chemistry B

    Cite this: J. Phys. Chem. B 2011, 115, 9, 2006–2013
    Click to copy citationCitation copied!
    https://doi.org/10.1021/jp107809r
    Published February 14, 2011
    Copyright © 2011 American Chemical Society
    Request reuse permissions

    Abstract

    Click to copy section linkSection link copied!
    Abstract Image

    In this paper we introduce the idea of the implicit crowding method to study the statistical mechanical behaviors of folding of β-sheet peptides. Using a simple bead-lattice model, we are able to consider, separately, the conformational entropy involving the bond angles along the backbone and the orientational entropy associated with the dihedral angles. We use a Ising-like model to partially account for the dihedral angle entropy and, implicitly, the hydrogen-bond formations. We also compare our results to recent experiments and find good quantitative agreement on the predicted folded fraction. On the basis of the predictions from the scaled particle theory, we investigate changes in the melting temperature of the protein, suggesting crowding enhanced stability for a variant of trpzip hairpin and a slight instability for the larger β-sheet designed proteins.

    Copyright © 2011 American Chemical Society

    Subjects

    what are subjects

    Read this article

    To access this article, please review the available access options below.

    Get instant access

    Purchase Access

    Read this article for 48 hours. Check out below using your ACS ID or as a guest.

    Recommended

    Access through Your Institution

    You may have access to this article through your institution.

    Your institution does not have access to this content. Add or change your institution or let them know you’d like them to include access.

    Cited By

    Click to copy section linkSection link copied!

    This article is cited by 8 publications.

    1. Alan R. Denton, Wyatt J. Davis. Influence of solvent quality on depletion potentials in colloid–polymer mixtures. The Journal of Chemical Physics 2021, 155 (8) https://doi.org/10.1063/5.0061370
    2. Mark P. Taylor, Christopher Vinci, Ryogo Suzuki. Effects of macromolecular crowding on the folding of a polymer chain: A Wang–Landau simulation study. The Journal of Chemical Physics 2020, 153 (17) https://doi.org/10.1063/5.0025640
    3. Wei Kang Lim, Alan R. Denton. Depletion-induced forces and crowding in polymer-nanoparticle mixtures: Role of polymer shape fluctuations and penetrability. The Journal of Chemical Physics 2016, 144 (2) https://doi.org/10.1063/1.4939766
    4. Wei Kang Lim, Alan R. Denton. Influence of polymer shape on depletion potentials and crowding in colloid–polymer mixtures. Soft Matter 2016, 12 (8) , 2247-2252. https://doi.org/10.1039/C5SM02863A
    5. Alan R. Denton. Crowding in Polymer–Nanoparticle Mixtures. 2014, 27-71. https://doi.org/10.1016/B978-0-12-800046-5.00003-5
    6. Angelo Onofrio, Giovanni Parisi, Giuseppe Punzi, Simona Todisco, Maria Antonietta Di Noia, Fabrizio Bossis, Antonio Turi, Anna De Grassi, Ciro Leonardo Pierri. Distance-dependent hydrophobic–hydrophobic contacts in protein folding simulations. Phys. Chem. Chem. Phys. 2014, 16 (35) , 18907-18917. https://doi.org/10.1039/C4CP01131G
    7. Travis Hoppe. A simplified representation of anisotropic charge distributions within proteins. The Journal of Chemical Physics 2013, 138 (17) https://doi.org/10.1063/1.4803099
    8. Junqi Yin, D.P. Landau. Massively parallel Wang–Landau sampling on multiple GPUs. Computer Physics Communications 2012, 183 (8) , 1568-1573. https://doi.org/10.1016/j.cpc.2012.02.023
    Download PDF
    Go to The Journal of Physical Chemistry B
    Get e-Alerts
    Get e-Alerts

    The Journal of Physical Chemistry B

    Cite this: J. Phys. Chem. B 2011, 115, 9, 2006–2013
    Click to copy citationCitation copied!
    https://doi.org/10.1021/jp107809r
    Published February 14, 2011
    Copyright © 2011 American Chemical Society
    Request reuse permissions

    Article Views

    436

    Altmetric

    -

    Citations

    8
    Learn about these metrics

    Article Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.

    Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.

    The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated.