138 related articles for article (PubMed ID: 15345537)
21. Conformational rigidity in a lattice model of proteins.
Collet O
Phys Rev E Stat Nonlin Soft Matter Phys; 2003 Jun; 67(6 Pt 1):061912. PubMed ID: 16241266
[TBL] [Abstract][Full Text] [Related]
22. Biopolymer structure simulation and optimization via fragment regrowth Monte Carlo.
Zhang J; Kou SC; Liu JS
J Chem Phys; 2007 Jun; 126(22):225101. PubMed ID: 17581081
[TBL] [Abstract][Full Text] [Related]
23. Use of residual dipolar couplings as restraints in ab initio protein structure prediction.
Haliloglu T; Kolinski A; Skolnick J
Biopolymers; 2003 Dec; 70(4):548-62. PubMed ID: 14648765
[TBL] [Abstract][Full Text] [Related]
24. Monte Carlo sampling algorithm for searching a scale-transformed energy space of polypeptides.
Nakamura H
J Comput Chem; 2002 Mar; 23(4):511-6. PubMed ID: 11908088
[TBL] [Abstract][Full Text] [Related]
25. Protein docking by the underestimation of free energy funnels in the space of encounter complexes.
Shen Y; Paschalidis ICh; Vakili P; Vajda S
PLoS Comput Biol; 2008 Oct; 4(10):e1000191. PubMed ID: 18846200
[TBL] [Abstract][Full Text] [Related]
26. The origins of protein secondary structure. Effects of packing density and hydrogen bonding studied by a fast conformational search.
Hunt NG; Gregoret LM; Cohen FE
J Mol Biol; 1994 Aug; 241(2):214-25. PubMed ID: 8057361
[TBL] [Abstract][Full Text] [Related]
27. New shooting algorithms for transition path sampling: centering moves and varied-perturbation sizes for improved sampling.
Rowley CN; Woo TK
J Chem Phys; 2009 Dec; 131(23):234102. PubMed ID: 20025309
[TBL] [Abstract][Full Text] [Related]
28. Monte Carlo simulation of dense polymer melts using event chain algorithms.
Kampmann TA; Boltz HH; Kierfeld J
J Chem Phys; 2015 Jul; 143(4):044105. PubMed ID: 26233105
[TBL] [Abstract][Full Text] [Related]
29. Flexible algorithm for direct multiple alignment of protein structures and sequences.
Godzik A; Skolnick J
Comput Appl Biosci; 1994 Dec; 10(6):587-96. PubMed ID: 7704657
[TBL] [Abstract][Full Text] [Related]
30. Constructing effective energy functions for protein structure prediction through broadening attraction-basin and reverse Monte Carlo sampling.
Wang C; Wei Y; Zhang H; Kong L; Sun S; Zheng WM; Bu D
BMC Bioinformatics; 2019 Mar; 20(Suppl 3):135. PubMed ID: 30925867
[TBL] [Abstract][Full Text] [Related]
31. Global optimization and folding pathways of selected alpha-helical proteins.
Carr JM; Wales DJ
J Chem Phys; 2005 Dec; 123(23):234901. PubMed ID: 16392943
[TBL] [Abstract][Full Text] [Related]
32. A Note on the Effects of Linear Topology Preservation in Monte Carlo Simulations of Knotted Proteins.
Especial JNC; Rey A; Faísca PFN
Int J Mol Sci; 2022 Nov; 23(22):. PubMed ID: 36430350
[TBL] [Abstract][Full Text] [Related]
33. A methodology for efficiently sampling the conformation space of molecular structures.
Lee A; Streinu I; Brock O
Phys Biol; 2005 Nov; 2(4):S108-15. PubMed ID: 16280616
[TBL] [Abstract][Full Text] [Related]
34. Discrete restraint-based protein modeling and the Calpha-trace problem.
DePristo MA; De Bakker PI; Shetty RP; Blundell TL
Protein Sci; 2003 Sep; 12(9):2032-46. PubMed ID: 12931001
[TBL] [Abstract][Full Text] [Related]
35. RNA folding kinetics using Monte Carlo and Gillespie algorithms.
Clote P; Bayegan AH
J Math Biol; 2018 Apr; 76(5):1195-1227. PubMed ID: 28780735
[TBL] [Abstract][Full Text] [Related]
36. Dramatic performance enhancements for the FASTER optimization algorithm.
Allen BD; Mayo SL
J Comput Chem; 2006 Jul; 27(10):1071-5. PubMed ID: 16685715
[TBL] [Abstract][Full Text] [Related]
37. Replica exchange molecular dynamics method for protein folding simulation.
Zhou R
Methods Mol Biol; 2007; 350():205-23. PubMed ID: 16957325
[TBL] [Abstract][Full Text] [Related]
38. A simple model of backbone flexibility improves modeling of side-chain conformational variability.
Friedland GD; Linares AJ; Smith CA; Kortemme T
J Mol Biol; 2008 Jul; 380(4):757-74. PubMed ID: 18547586
[TBL] [Abstract][Full Text] [Related]
39. Heuristic-based tabu search algorithm for folding two-dimensional AB off-lattice model proteins.
Liu J; Sun Y; Li G; Song B; Huang W
Comput Biol Chem; 2013 Dec; 47():142-8. PubMed ID: 24077543
[TBL] [Abstract][Full Text] [Related]
40. Exploration of compact protein conformations using the guided replication Monte Carlo method.
Solomon JE; Liney D
Biopolymers; 1995 Nov; 36(5):579-97. PubMed ID: 7578950
[TBL] [Abstract][Full Text] [Related]
[Previous] [Next] [New Search]
