171 related articles for article (PubMed ID: 37071827)
1. Optimized OPEP Force Field for Simulation of Crowded Protein Solutions.
Timr S; Melchionna S; Derreumaux P; Sterpone F
J Phys Chem B; 2023 Apr; 127(16):3616-3623. PubMed ID: 37071827
[TBL] [Abstract][Full Text] [Related]
2. Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012).
Foffi G; Pastore A; Piazza F; Temussi PA
Phys Biol; 2013 Aug; 10(4):040301. PubMed ID: 23912807
[TBL] [Abstract][Full Text] [Related]
3. Structure, energetics and dynamics in crowded amino acid solutions: a molecular dynamics study.
Panigrahy S; Sahu R; Reddy SK; Nayar D
Phys Chem Chem Phys; 2023 Feb; 25(7):5430-5442. PubMed ID: 36744506
[TBL] [Abstract][Full Text] [Related]
4. Atomistic Simulation of Lysozyme in Solutions Crowded by Tetraethylene Glycol: Force Field Dependence.
Liu D; Qiu Y; Li Q; Zhang H
Molecules; 2022 Mar; 27(7):. PubMed ID: 35408509
[TBL] [Abstract][Full Text] [Related]
5. Protein Simulations in Fluids: Coupling the OPEP Coarse-Grained Force Field with Hydrodynamics.
Sterpone F; Derreumaux P; Melchionna S
J Chem Theory Comput; 2015 Apr; 11(4):1843-53. PubMed ID: 26574390
[TBL] [Abstract][Full Text] [Related]
6. OPEP6: A New Constant-pH Molecular Dynamics Simulation Scheme with OPEP Coarse-Grained Force Field.
Barroso da Silva FL; Sterpone F; Derreumaux P
J Chem Theory Comput; 2019 Jun; 15(6):3875-3888. PubMed ID: 31059255
[TBL] [Abstract][Full Text] [Related]
7. The coarse-grained OPEP force field for non-amyloid and amyloid proteins.
Chebaro Y; Pasquali S; Derreumaux P
J Phys Chem B; 2012 Aug; 116(30):8741-52. PubMed ID: 22742737
[TBL] [Abstract][Full Text] [Related]
8. Multi-scale simulations of biological systems using the OPEP coarse-grained model.
Sterpone F; Doutreligne S; Tran TT; Melchionna S; Baaden M; Nguyen PH; Derreumaux P
Biochem Biophys Res Commun; 2018 Mar; 498(2):296-304. PubMed ID: 28917842
[TBL] [Abstract][Full Text] [Related]
9. Meaningful interpretation of subdiffusive measurements in living cells (crowded environment) by fluorescence fluctuation microscopy.
Baumann G; Place RF; Földes-Papp Z
Curr Pharm Biotechnol; 2010 Aug; 11(5):527-43. PubMed ID: 20553227
[TBL] [Abstract][Full Text] [Related]
10. Brownian dynamics simulation of protein solutions: structural and dynamical properties.
Mereghetti P; Gabdoulline RR; Wade RC
Biophys J; 2010 Dec; 99(11):3782-91. PubMed ID: 21112303
[TBL] [Abstract][Full Text] [Related]
11. Protein crowding affects hydration structure and dynamics.
Harada R; Sugita Y; Feig M
J Am Chem Soc; 2012 Mar; 134(10):4842-9. PubMed ID: 22352398
[TBL] [Abstract][Full Text] [Related]
12. Effects of Homogeneous and Heterogeneous Crowding on Translational Diffusion of Rigid Bovine Serum Albumin and Disordered Alfa-Casein.
Kusova AM; Rakipov IT; Zuev YF
Int J Mol Sci; 2023 Jul; 24(13):. PubMed ID: 37446325
[TBL] [Abstract][Full Text] [Related]
13. What determines sub-diffusive behavior in crowded protein solutions?
Kompella VPS; Romano MC; Stansfield I; Mancera RL
Biophys J; 2024 Jan; 123(2):134-146. PubMed ID: 38073154
[TBL] [Abstract][Full Text] [Related]
14. Improving coarse-grained models of protein folding through weighting of polar-polar/hydrophobic-hydrophobic interactions into crowded spaces.
Beltrán HI; Alas-Guardado SJ; González-Pérez PP
J Mol Model; 2022 Mar; 28(4):87. PubMed ID: 35262807
[TBL] [Abstract][Full Text] [Related]
15. Folding dynamics of Trp-cage in the presence of chemical interference and macromolecular crowding. I.
Samiotakis A; Cheung MS
J Chem Phys; 2011 Nov; 135(17):175101. PubMed ID: 22070323
[TBL] [Abstract][Full Text] [Related]
16. A coarse-grained model for the simulations of biomolecular interactions in cellular environments.
Xie ZR; Chen J; Wu Y
J Chem Phys; 2014 Feb; 140(5):054112. PubMed ID: 24511927
[TBL] [Abstract][Full Text] [Related]
17. Modified Protein-Water Interactions in CHARMM36m for Thermodynamics and Kinetics of Proteins in Dilute and Crowded Solutions.
Matsubara D; Kasahara K; Dokainish HM; Oshima H; Sugita Y
Molecules; 2022 Sep; 27(17):. PubMed ID: 36080494
[TBL] [Abstract][Full Text] [Related]
18. Macromolecular dynamics in crowded environments.
Echeverria C; Kapral R
J Chem Phys; 2010 Mar; 132(10):104902. PubMed ID: 20232985
[TBL] [Abstract][Full Text] [Related]
19. Slow-Down in Diffusion in Crowded Protein Solutions Correlates with Transient Cluster Formation.
Nawrocki G; Wang PH; Yu I; Sugita Y; Feig M
J Phys Chem B; 2017 Dec; 121(49):11072-11084. PubMed ID: 29151345
[TBL] [Abstract][Full Text] [Related]
20. A coarse-grained protein force field for folding and structure prediction.
Maupetit J; Tuffery P; Derreumaux P
Proteins; 2007 Nov; 69(2):394-408. PubMed ID: 17600832
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]