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Molecular Dynamics Simulations in Structural Biology: From Proteins to Complex Biomolecular Systems

A special issue of Current Issues in Molecular Biology (ISSN 1467-3045). This special issue belongs to the section "Bioinformatics and Systems Biology".

Deadline for manuscript submissions: 31 July 2026 | Viewed by 772

Special Issue Editor


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Guest Editor
1. Centro de Investigación en Biofísica Aplicada y Alimentos (CIBAAL-UNSE-CONICET), Universidad Nacional de Santiago del Estero, Santiago del Estero 4206, Argentina
2. Facultad de Ciencias Exactas y Tecnologías, Departamento Académico de Química, Universidad Nacional de Santiago del Estero, Santiago del Estero 4200, Argentina
Interests: density functional theory (DFT); FTIR/vibrational spectroscopy; protein–ligand interactions; molecular docking; bio nanoparticles & enzymatic systems; computational chemistry; alkaloid–protein interaction mechanisms; enzyme structural and functional characterization

Special Issue Information

Dear Colleagues,

This Special Issue The purpose of this is to gain insights into the atomic structures and the temporal evolution of proteins, including experimental techniques, as well as mathematical and computational modeling approaches for the comprehension of biological function.

There is also interest in molecular interactions involved in the protein function and molecular docking. It is known that the role biological of new proteins is usually very complicated to determine.For this reason, dynamic simulations are extraordinary tool for predicting the behavior in the binding side. Therefore, the objective of this Special Issue is to publish high-quality articles, including original research, reviews, short communications, and clinical reports on diagnosis, investigation, and treatment, where the proteins and their biocomplexes are participants at the molecular level.

Dr. Ana E. Ledesma
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 250 words) can be sent to the Editorial Office for assessment.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Current Issues in Molecular Biology is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2200 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • protein
  • molecular docking
  • dynamic simulation
  • biomolecular systems
  • molecular interactions
  • structural modification
  • enzyme activity
  • biological function
  • antioxidant activity
  • infrared spectroscopy

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Published Papers (1 paper)

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Research

14 pages, 1640 KB  
Article
Generation of an Insecticidal Human Domain Antibody from a Phage Library Targeting Plutella xylostella Brush-Border Membrane Vesicles
by Xiaodan Hu, Xiao Zhang, Junmin Fan, Wei Chen, Fang Ji, Qing Wang, Juanjuan Tian, Jinfeng Hou, Hong Wang, Shuting Yu, Wenwen Qi, Xianjin Liu, Yuan Liu and Chunqin Xie
Curr. Issues Mol. Biol. 2026, 48(2), 192; https://doi.org/10.3390/cimb48020192 - 8 Feb 2026
Viewed by 477
Abstract
The importance of protein-based materials in agricultural pest control has received increasing attention in recent years. Herein, Plutella xylostella brush-border membrane vesicles (BBMVs) were used as a target to screen for human domain antibodies with insecticidal activity. Three rounds of panning of the [...] Read more.
The importance of protein-based materials in agricultural pest control has received increasing attention in recent years. Herein, Plutella xylostella brush-border membrane vesicles (BBMVs) were used as a target to screen for human domain antibodies with insecticidal activity. Three rounds of panning of the phage display library yielded the domain antibody C4D, which competed with the Cry1Ac toxin to bind to P. xylostella BBMVs. Against P. xylostella larvae, the recombinant soluble C4D protein showed an LC50 of 1.57 μg/cm2 (95% fiducial limits: 0.83–2.54). Using pull-down assays and liquid chromatography–tandem mass spectrometry, we identified the C4D binding partner in P. xylostella midgut BBMVs to be a cadherin-like protein. Bio-Layer Interferometry assay revealed that the dissociation constant between soluble C4D and P. xylostella cadherin-like protein was 2.99 × 10−6 M. Thus, the present study explored strategies to generate insecticidal antibodies, and the human domain antibody C4D identified and characterized in this study can serve as a framework for generating novel insecticidal agents. Full article
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