Keyword search (4,164 papers available)

"Simulation" Keyword-tagged Publications:

Title Authors PubMed ID
1 Laboratory-scale simulation study on the bioremediation of marine oil pollution by phosphate-solubilizing bacteria Bacillus subtilis PSB-1 Du Z; Li Z; Chen X; Liu M; Feng L; Li Q; Chen Z; Chen Q; 41707285
ENCS
2 Assessment of risk for aromatic hydrocarbons resulting from subsea Blowouts: A case study in eastern Canada Yang Z; Chen Z; Xin Q; Lee K; 39571296
ENCS
3 In silico molecular targets, docking, dynamics simulation and physiologically based pharmacokinetics modeling of oritavancin Fatoki TH; Balogun TC; Ojewuyi AE; Omole AC; Olukayode OV; Adewumi AP; Umesi AJ; Ijeoma NP; Apooyin AE; Chinedu CP; Idowu IE; Isah MJ; 39439008
CHEMBIOCHEM
4 What can optimized cost distances based on genetic distances offer? A simulation study on the use and misuse of ResistanceGA Daniel A; Savary P; Foltête JC; Vuidel G; Faivre B; Garnier S; Khimoun A; 39417711
BIOLOGY
5 Numerical Simulation of the Effect of Particle and Substrate Preheating on Porosity Level and Residual Stress of As-sprayed Ti6Al4V Components Khamsepour P; Moreau C; Dolatabadi A; 38624932
ENCS
6 In Silico Study of the Early Stages of Aggregation of β-Sheet Forming Antimicrobial Peptide GL13K Hamidabad MN; Watson NA; Wright LN; Mansbach RA; 38572930
PHYSICS
7 Insights into dietary phytochemicals targeting Parkinson's disease key genes and pathways: A network pharmacology approach Sasikumar DSN; Thiruselvam P; Sundararajan V; Ravindran R; Gunasekaran S; Madathil D; Kaliamurthi S; Peslherbe GH; Selvaraj G; Sudhakaran SL; 38460310
CHEMBIOCHEM
8 Design Optimization of a Hybrid-Driven Soft Surgical Robot with Biomimetic Constraints Roshanfar M; Dargahi J; Hooshiar A; 38275456
ENCS
9 Proteomics-based vaccine targets annotation and design of subunit and mRNA-based vaccines for Monkeypox virus (MPXV) against the recent outbreak Jin Y; Fayyaz A; Liaqat A; Khan A; Alshammari A; Wang Y; Gu RX; Wei DQ; 37116237
CONCORDIA
10 Evaluating Emotional Outcomes of Medical Students in Pediatric Emergency Medicine Telesimulation Nomura O; Sunohara M; Watanabe I; Itoh T; 36670719
PSYCHOLOGY
11 Energy, economic, and environmental impacts of enhanced ventilation strategies on railway coaches to reduce Covid-19 contagion risks Barone G; Buonomano A; Forzano C; Giuzio GF; Palombo A; 35754761
ENCS
12 Teaching Culturally Safe Care in Simulated Cultural Communication Scenarios During the COVID-19 Pandemic: Virtual Visits with Indigenous Animators Maar M; McGregor L; Desjardins D; Delaney KZ; Bessette N; Reade M; 35392591
HKAP
13 A Proposed Multi-Criteria Optimization Approach to Enhance Clinical Outcomes Evaluation for Diabetes Care: A Commentary Wan TTH; Matthews S; Luh H; Zeng Y; Wang Z; Yang L; 35372638
ENCS
14 Insights from a dyslexia simulation font: Can we simulate reading struggles of individuals with dyslexia? Stark Z; Franzen L; Johnson AP; 34854169
PSYCHOLOGY
15 A Simulation Toolkit for Testing the Sensitivity and Accuracy of Corticometry Pipelines OmidYeganeh M; Khalili-Mahani N; Bermudez P; Ross A; Lepage C; Vincent RD; Jeon S; Lewis LB; Das S; Zijdenbos AP; Rioux P; Adalat R; Van Eede MC; Evans AC; 34381348
PERFORM
16 Mitigating COVID-19 infection disease transmission in indoor environment using physical barriers Ren C; Xi C; Wang J; Feng Z; Nasiri F; Cao SJ; Haghighat F; 34306996
ENCS
17 Numerical assessment of directional energy performance for 3D printed midsole structures Sultana A; Kwok TH; Hsu CC; Ng HD; 34198446
ENCS
18 Structure-Based Virtual Screening Reveals Ibrutinib and Zanubrutinib as Potential Repurposed Drugs against COVID-19 Kaliamurthi S; Selvaraj G; Selvaraj C; Singh SK; Wei DQ; Peslherbe GH; 34209188
CHEMBIOCHEM
19 Exploring the Role of Glycans in the Interaction of SARS-CoV-2 RBD and Human Receptor ACE2 Nguyen K; Chakraborty S; Mansbach RA; Korber B; Gnanakaran S; 34067878
PHYSICS
20 Multimodal 3D ultrasound and CT in image-guided spinal surgery: public database and new registration algorithms Masoumi N; Belasso CJ; Ahmad MO; Benali H; Xiao Y; Rivaz H; 33683544
PERFORM
21 Using Models to (Re-)Design Synthetic Circuits. McCallum G, Potvin-Trottier L 33405217
BIOLOGY
22 Simulation and computer modeling of asphaltene in different solvents on oil-water interfaces using a molecular dynamic methodology. Yuan J, Elektorowicz M, Chen Z, Segun GA, Vakili M, Zhong L, Wang B, Zhu J, Wu Y 31542686
ENCS
23 Simulations and error analysis of the CNC milling of a face gear tooth with given tool paths. Yi H, Zhou Y, Tang J, Chen ZC 31297425
ENCS

 

Title:In Silico Study of the Early Stages of Aggregation of β-Sheet Forming Antimicrobial Peptide GL13K
Authors:Hamidabad MNWatson NAWright LNMansbach RA
Link:https://pubmed.ncbi.nlm.nih.gov/38572930/
DOI:10.1002/cbic.202400088
Publication:Chembiochem : a European journal of chemical biology
Keywords:antimicrobial peptidesbiophysicsmolecular dynamics simulation
PMID:38572930 Category: Date Added:2024-04-04
Dept Affiliation: PHYSICS
1 Physics Department, Concordia University, Montréal, QC, H4B 1R6, Canada.

Description:

Antimicrobial peptides (AMPs) are of growing interest as potential candidates that may offer more resilience against antimicrobial resistance than traditional antibiotic agents. In this article, we perform the first in silico study of the synthetic ß sheet-forming AMP GL13K. Through atomistic simulations of single and multi-peptide systems under different conditions, we are able to shine a light on the short timescales of early aggregation. We find that isolated peptide conformations are primarily dictated by sequence rather than charge, whereas changing charge has a significant impact on the conformational free energy landscape of multi-peptide systems. We demonstrate that the loss of charge-charge repulsion is a sufficient minimal model for experimentally observed aggregation. Overall, our work explores the molecular biophysical underpinnings of the first stages of aggregation of a unique AMP, laying necessary groundwork for its further development as an antibiotic candidate.





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