Binwu Zhao

Works (8)

Updated: July 5th, 2023 15:40

2021 article

On the liquid demixing of water + elastin-like polypeptide mixtures: bimodal re-entrant phase behaviour

Lindeboom, T., Zhao, B., Jackson, G., Hall, C. K., & Galindo, A. (2021, January 1). Physical Chemistry Chemical Physics, Vol. 23, pp. 5936–5944.

By: T. Lindeboom*, B. Zhao n, G. Jackson *, C. Hall n  & A. Galindo *

MeSH headings : Computer Simulation; Elastin / chemistry; Hydrogen Bonding; Hydrophobic and Hydrophilic Interactions; Models, Molecular; Peptides / chemistry; Phase Transition; Solvents / chemistry; Thermodynamics; Transition Temperature
topics (OpenAlex): Proteins in Food Systems; Phase Equilibria and Thermodynamics; Surfactants and Colloidal Systems
TL;DR: The observation of bimodal LCSTs and two re-entrant LLE regions herald a new type of binary global phase diagram: Type XII, which resembles a protein pressure denaturation diagram in aqueous solution. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: April 5, 2021

2017 article

Navigating in foldonia: Using accelerated molecular dynamics to explore stability, unfolding and self-healing of the β-solenoid structure formed by a silk-like polypeptide

Zhao, B., Stuart, M. A. C., & Hall, C. K. (2017, March 22). PLoS Computational Biology, Vol. 13.

By: B. Zhao n, M. Stuart * & C. Hall n 

MeSH headings : Models, Chemical; Molecular Dynamics Simulation; Peptides / chemistry; Protein Conformation; Protein Domains; Protein Folding; Protein Unfolding; Silk / chemistry; Silk / ultrastructure
topics (OpenAlex): Bacteriophages and microbial interactions; RNA Interference and Gene Delivery; RNA and protein synthesis mechanisms
TL;DR: This study shows that a molecule in a stack of two β roll molecules unfolds in a step-wise fashion mainly from the C terminal, and the bottom template is found to play an important role in stabilizing the β roll structure of the molecule on top by strengthening the hydrogen bonds in the layer that it contacts. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2016 article

Dock ‘n roll: folding of a silk-inspired polypeptide into an amyloid-like beta solenoid

Zhao, B., Stuart, M. A. C., & Hall, C. K. (2016, January 1). Soft Matter, Vol. 12, pp. 3721–3729.

By: B. Zhao n, M. Stuart * & C. Hall n 

MeSH headings : Amino Acid Motifs; Amyloid beta-Peptides / chemistry; Animals; Humans; Hydrogen Bonding; Nuclear Magnetic Resonance, Biomolecular; Protein Folding; Silk / chemistry
topics (OpenAlex): Bacteriophages and microbial interactions; RNA and protein synthesis mechanisms; Protein Structure and Dynamics
TL;DR: Ground state analysis as well as atomic-level molecular dynamics simulations are performed, both on single molecules and on two-molecule stacks of the silk-inspired sequence (GAGAGAGQ)10, to decide whether the hydrophobic core or the Hydrophobic shell configuration is the most stable one. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2016 article

Probe the Binding Mode of Aristololactam‐β‐D‐glucoside to Phenylalanine Transfer RNA in Silico

Xiao, X., Zhao, B., Yang, L., Liang, X., & Ren, Y. (2016, October 16). ChemistrySelect.

By: X. Xiao n, B. Zhao n, L. Yang *, X. Liang * & Y. Ren*

author keywords: Aristololactam-beta-D-glucoside; Binding of drug molecule and RNA; Molecular docking and simulations; Molecular recognition mechanism; Phenylalanine transfer RNA
topics (OpenAlex): RNA and protein synthesis mechanisms; DNA and Nucleic Acid Chemistry; Metal complexes synthesis and properties; Garlic and Onion Studies; Crystal structures of chemical compounds; Plant chemical constituents analysis
TL;DR: An integrated computational strategy combining quantum mechanics calculation, molecular docking and atomistic molecular dynamics simulation was present in this work, and it was identified that the aristololactam of ADG provides binding specificity to the tRNAPhe, and the D-glucoce contributes to the affinity for binding with the tRNA. (via Semantic Scholar)
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Source: Web Of Science
Added: August 6, 2018

2016 article

Simulation study of the ability of a computationally‐designed peptide to recognize target tRNALys3 and other decoy tRNAs

Xiao, X., Zhao, B., Agris, P. F., & Hall, C. K. (2016, September 28). Protein Science, Vol. 25, pp. 2243–2255.

By: X. Xiao n, B. Zhao n, P. Agris * & C. Hall n 

author keywords: binding uniqueness; target tRNA(Lys3) UUU; binding of RNA and peptide; molecular recognition mechanism
MeSH headings : Humans; Molecular Dynamics Simulation; Peptides / chemistry; RNA, Transfer, Lys / chemistry; Thermodynamics
topics (OpenAlex): RNA and protein synthesis mechanisms; RNA modifications and cancer; RNA Research and Splicing
TL;DR: Results indicated that Pept10 recognizes and binds to the target ASLLys3 through residues W3 and R7 which interact with the nucleotides mcm5s2U34, U35, and ms2t6A37 via the interchain VDW energy. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2015 article

Effect of curvature on properties of diblock copolymers confined between two coaxial cylinders: 1. Layer thickness of a curved monolayer

Xiao, X., Zhao, B., & Ren, Y. (2015, May 26). Chemical Physics Letters.

By: X. Xiao n, B. Zhao n & Y. Ren*

topics (OpenAlex): Block Copolymer Self-Assembly; Polymer Surface Interaction Studies; Nanopore and Nanochannel Transport Studies
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7. Affordable and Clean Energy (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2015 article

Effect of curvature on properties of diblock copolymers confined between two coaxial cylinders: 2. Domain adjustment in a curved bilayer

Xiao, X., Zhao, B., Yang, L., & Ren, Y. (2015, October 1). Chemical Physics Letters.

By: X. Xiao n, B. Zhao n, L. Yang * & Y. Ren*

topics (OpenAlex): Block Copolymer Self-Assembly; Characterization and Applications of Magnetic Nanoparticles; Polymer Surface Interaction Studies
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Source: Web Of Science
Added: August 6, 2018

2015 article

LCST Behavior is Manifested in a Single Molecule: Elastin-Like polypeptide (VPGVG)n

Zhao, B., Li, N. K., Yingling, Y. G., & Hall, C. K. (2015, November 23). Biomacromolecules, Vol. 17, pp. 111–118.

By: B. Zhao n, N. Li n, Y. Yingling n  & C. Hall n 

Contributors: C. Hall n , Y. Yingling n , N. Li n & B. Zhao n

MeSH headings : Cold Temperature; Elastin / chemistry; Hydrogen Bonding; Oligopeptides / chemistry; Peptides / chemistry; Pharmaceutical Solutions / chemistry; Transition Temperature; Water / chemistry
topics (OpenAlex): Connective tissue disorders research; Elasticity and Material Modeling; Caveolin-1 and cellular processes
TL;DR: Simulation of the physical origin of the lower critical solution temperature (LCST) behavior of elastin-like polypeptides (ELPs) finds evidence for properties changes associated with LCST behavior in a single molecule by performing long atomic-level molecular dynamics simulation on the ELP sequences for four different length peptides over a wide range of temperatures. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

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