157 related articles for article (PubMed ID: 19894980)
1. Dual folding pathways of an alpha/beta protein from all-atom ab initio folding simulations.
Lei H; Wang ZX; Wu C; Duan Y
J Chem Phys; 2009 Oct; 131(16):165105. PubMed ID: 19894980
[TBL] [Abstract][Full Text] [Related]
2. Folding processes of the B domain of protein A to the native state observed in all-atom ab initio folding simulations.
Lei H; Wu C; Wang ZX; Zhou Y; Duan Y
J Chem Phys; 2008 Jun; 128(23):235105. PubMed ID: 18570534
[TBL] [Abstract][Full Text] [Related]
3. Understanding the folding and stability of a zinc finger-based full sequence design protein with replica exchange molecular dynamics simulations.
Li W; Zhang J; Wang W
Proteins; 2007 May; 67(2):338-49. PubMed ID: 17285627
[TBL] [Abstract][Full Text] [Related]
4. Balance between alpha and beta structures in ab initio protein folding.
Best RB; Mittal J
J Phys Chem B; 2010 Jul; 114(26):8790-8. PubMed ID: 20536262
[TBL] [Abstract][Full Text] [Related]
5. Two-stage folding of HP-35 from ab initio simulations.
Lei H; Duan Y
J Mol Biol; 2007 Jun; 370(1):196-206. PubMed ID: 17512537
[TBL] [Abstract][Full Text] [Related]
6. Ab initio protein structure prediction with force field parameters derived from water-phase quantum chemical calculation.
Katagiri D; Fuji H; Neya S; Hoshino T
J Comput Chem; 2008 Sep; 29(12):1930-44. PubMed ID: 18366016
[TBL] [Abstract][Full Text] [Related]
7. The fast-folding HP35 double mutant has a substantially reduced primary folding free energy barrier.
Lei H; Deng X; Wang Z; Duan Y
J Chem Phys; 2008 Oct; 129(15):155104. PubMed ID: 19045234
[TBL] [Abstract][Full Text] [Related]
8. Folding models of mini-protein FSD-1.
Lee IH; Kim SY; Lee J
J Phys Chem B; 2012 Jun; 116(23):6916-22. PubMed ID: 22417236
[TBL] [Abstract][Full Text] [Related]
9. Ab initio folding of helix bundle proteins using molecular dynamics simulations.
Jang S; Kim E; Shin S; Pak Y
J Am Chem Soc; 2003 Dec; 125(48):14841-6. PubMed ID: 14640661
[TBL] [Abstract][Full Text] [Related]
10. Direct folding simulation of alpha-helices and beta-hairpins based on a single all-atom force field with an implicit solvation model.
Jang S; Kim E; Pak Y
Proteins; 2007 Jan; 66(1):53-60. PubMed ID: 17063490
[TBL] [Abstract][Full Text] [Related]
11. Folding free-energy landscape of villin headpiece subdomain from molecular dynamics simulations.
Lei H; Wu C; Liu H; Duan Y
Proc Natl Acad Sci U S A; 2007 Mar; 104(12):4925-30. PubMed ID: 17360390
[TBL] [Abstract][Full Text] [Related]
12. Folding simulations of a de novo designed protein with a betaalphabeta fold.
Qi Y; Huang Y; Liang H; Liu Z; Lai L
Biophys J; 2010 Jan; 98(2):321-9. PubMed ID: 20338854
[TBL] [Abstract][Full Text] [Related]
13. Free energy surfaces of beta-hairpin and alpha-helical peptides generated by replica exchange molecular dynamics with the AGBNP implicit solvent model.
Felts AK; Harano Y; Gallicchio E; Levy RM
Proteins; 2004 Aug; 56(2):310-21. PubMed ID: 15211514
[TBL] [Abstract][Full Text] [Related]
14. Ab initio folding of proteins with all-atom discrete molecular dynamics.
Ding F; Tsao D; Nie H; Dokholyan NV
Structure; 2008 Jul; 16(7):1010-8. PubMed ID: 18611374
[TBL] [Abstract][Full Text] [Related]
15. Comparative study of generalized born models: Born radii and peptide folding.
Zhu J; Alexov E; Honig B
J Phys Chem B; 2005 Feb; 109(7):3008-22. PubMed ID: 16851315
[TBL] [Abstract][Full Text] [Related]
16. Balancing simulation accuracy and efficiency with the Amber united atom force field.
Hsieh MJ; Luo R
J Phys Chem B; 2010 Mar; 114(8):2886-93. PubMed ID: 20131885
[TBL] [Abstract][Full Text] [Related]
17. A comparative study of two different force fields on structural and thermodynamics character of H1 peptide via molecular dynamics simulations.
Cao Z; Wang J
J Biomol Struct Dyn; 2010 Apr; 27(5):651-61. PubMed ID: 20085382
[TBL] [Abstract][Full Text] [Related]
18. Exploratory studies of ab initio protein structure prediction: multiple copy simulated annealing, AMBER energy functions, and a generalized born/solvent accessibility solvation model.
Liu Y; Beveridge DL
Proteins; 2002 Jan; 46(1):128-46. PubMed ID: 11746709
[TBL] [Abstract][Full Text] [Related]
19. The role of plastic beta-hairpin and weak hydrophobic core in the stability and unfolding of a full sequence design protein.
Lei H; Duan Y
J Chem Phys; 2004 Dec; 121(23):12104-11. PubMed ID: 15634176
[TBL] [Abstract][Full Text] [Related]
20. Ab initio folding simulation of Trpcage by replica exchange with hybrid Hamiltonian.
Xu W; Mu Y
Biophys Chem; 2008 Oct; 137(2-3):116-25. PubMed ID: 18775599
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]