Keyword search (4,164 papers available)

"Dynamics" Keyword-tagged Publications:

Title Authors PubMed ID
1 Hemodynamic performance and blood damage of the Intra-aortic pumps: A CFD-Based investigation Aycan O; Park Y; Kadem L; 41863715
ENCS
2 Experimental Investigation of the Effect of a MitraClip on Left Ventricular Flow Dynamics Teimouri K; Darwish A; Saleh W; Ng HD; Kadem L; 40325266
ENCS
3 Correlations of pilot trainees brainwave dynamics with subjective performance evaluations: insights from EEG microstate analysis Zhao M; Law A; Su C; Jennings S; Bourgon A; Jia W; Larose MH; Bowness D; Zeng Y; 40109507
ENCS
4 Numerical investigation of the flow induced by a transcatheter intra-aortic entrainment pump Park Y; Aycan O; Kadem L; 40014031
ENCS
5 The effect of micro-vessel viscosity on the resonance response of a two-microbubble system Yusefi H; Helfield B; 39705920
BIOLOGY
6 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
7 Cell Fate Dynamics Reconstruction Identifies TPT1 and PTPRZ1 Feedback Loops as Master Regulators of Differentiation in Pediatric Glioblastoma-Immune Cell Networks Abicumaran Uthamacumaran 39420135
PSYCHOLOGY
8 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
9 Subharmonic resonance of phospholipid coated ultrasound contrast agent microbubbles Yusefi H; Helfield B; 38217906
BIOLOGY
10 Microgeographic variation in demography and thermal regimes stabilize regional abundance of a widespread freshwater fish Gallagher BK; Fraser DJ; 38071739
BIOLOGY
11 Multi-objective control optimization of isolated bridge using replicator controller and NSGA-II Momeni Z; Bagchi A; 37662735
ENCS
12 The experimental multi-arm pendulum on a cart: A benchmark system for chaos, learning, and control Kaheman K; Fasel U; Bramburger JJ; Strom B; Kutz JN; Brunton SL; 37637793
ENCS
13 Pushed to the edge: Spatial sorting can slow down invasions Shaw AK; Lutscher F; Popovic L; 37198882
BIOLOGY
14 Microfluidics for long-term single-cell time-lapse microscopy: Advances and applications Allard P; Papazotos F; Potvin-Trottier L; 36312536
BIOLOGY
15 The influence of inter-bubble spacing on the resonance response of ultrasound contrast agent microbubbles Yusefi H; Helfield B; 36223708
BIOLOGY
16 Pilates training reduces blood pressure in older women with type 2 diabetes: A randomized controlled trial Andrade IYTP; Melo KCB; Andrade KTP; Almeida LG; Moreira SR; 35500966
HKAP
17 Hypersaline Pore Water in Gulf of Mexico Beaches Prevented Efficient Biodegradation of Deepwater Horizon Beached Oil Geng X; Khalil CA; Prince RC; Lee K; An C; Boufadel MC; 34617733
ENCS
18 Interrogation of Bacillus anthracis SrtA active site loop forming open/close lid conformations through extensive MD simulations for understanding binding selectivity of SrtA inhibitors Selvaraj C; Selvaraj G; Mohamed Ismail R; Vijayakumar R; Baazeem A; Wei DQ; Singh SK; 34220215
BIOLOGY
19 Effects of pH on an IDP conformational ensemble explored by molecular dynamics simulation. Lindsay RJ, Mansbach RA, Gnanakaran S, Shen T 33581430
PHYSICS
20 Proper Orthogonal Decomposition Analysis of the Flow Downstream of a Dysfunctional Bileaflet Mechanical Aortic Valve. Darwish A, Di Labbio G, Saleh W, Kadem L 33469847
ENCS
21 Cancer: A turbulence problem. Uthamacumaran A 33142240
CONCORDIA
22 Simulation of Capillary Hemodynamics and Comparison with Experimental Results of Microphantom Perfusion Weighted Imaging. S S, N RA 32637373
PHYSICS
23 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
24 Differences in MEG and EEG power-law scaling explained by a coupling between spatial coherence and frequency: a simulation study. Bénar CG, Grova C, Jirsa VK, Lina JM 31292816
PERFORM
25 Virtual screening, docking, and dynamics of potential new inhibitors of dihydrofolate reductase from Yersinia pestis. Bastos Lda C, de Souza FR, Guimarães AP, Sirouspour M, Cuya Guizado TR, Forgione P, Ramalho TC, França TC 26494420
CHEMISTRY
26 Beyond neutrality: disentangling the effects of species sorting and spurious correlations in community analysis. Clappe S, Dray S, Peres-Neto PR 29723919
BIOLOGY

 

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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