118 related articles for article (PubMed ID: 15264257)
1. Optimization and dynamics of protein-protein complexes using B-splines.
Gillilan RE; Lilien RH
J Comput Chem; 2004 Oct; 25(13):1630-46. PubMed ID: 15264257
[TBL] [Abstract][Full Text] [Related]
2. An efficient molecular docking using conformational space annealing.
Lee K; Czaplewski C; Kim SY; Lee J
J Comput Chem; 2005 Jan; 26(1):78-87. PubMed ID: 15538770
[TBL] [Abstract][Full Text] [Related]
3. Detailed analysis of grid-based molecular docking: A case study of CDOCKER-A CHARMm-based MD docking algorithm.
Wu G; Robertson DH; Brooks CL; Vieth M
J Comput Chem; 2003 Oct; 24(13):1549-62. PubMed ID: 12925999
[TBL] [Abstract][Full Text] [Related]
4. Progress in protein-protein docking: atomic resolution predictions in the CAPRI experiment using RosettaDock with an improved treatment of side-chain flexibility.
Schueler-Furman O; Wang C; Baker D
Proteins; 2005 Aug; 60(2):187-94. PubMed ID: 15981249
[TBL] [Abstract][Full Text] [Related]
5. Performance of hybrid methods for large-scale unconstrained optimization as applied to models of proteins.
Das B; Meirovitch H; Navon IM
J Comput Chem; 2003 Jul; 24(10):1222-31. PubMed ID: 12820130
[TBL] [Abstract][Full Text] [Related]
6. Physicochemical and residue conservation calculations to improve the ranking of protein-protein docking solutions.
Duan Y; Reddy BV; Kaznessis YN
Protein Sci; 2005 Feb; 14(2):316-28. PubMed ID: 15659366
[TBL] [Abstract][Full Text] [Related]
7. Incorporating receptor flexibility in the molecular design of protein interfaces.
Li L; Liang S; Pilcher MM; Meroueh SO
Protein Eng Des Sel; 2009 Sep; 22(9):575-86. PubMed ID: 19643976
[TBL] [Abstract][Full Text] [Related]
8. Study of protein-protein interaction using conformational space annealing.
Lee K; Sim J; Lee J
Proteins; 2005 Aug; 60(2):257-62. PubMed ID: 15981254
[TBL] [Abstract][Full Text] [Related]
9. Inherent speedup limitations in multiple time step/particle mesh Ewald algorithms.
Barash D; Yang L; Qian X; Schlick T
J Comput Chem; 2003 Jan; 24(1):77-88. PubMed ID: 12483677
[TBL] [Abstract][Full Text] [Related]
10. Energy minimization in low-frequency normal modes to efficiently allow for global flexibility during systematic protein-protein docking.
May A; Zacharias M
Proteins; 2008 Feb; 70(3):794-809. PubMed ID: 17729269
[TBL] [Abstract][Full Text] [Related]
11. Simulated annealing coupled replica exchange molecular dynamics--an efficient conformational sampling method.
Kannan S; Zacharias M
J Struct Biol; 2009 Jun; 166(3):288-94. PubMed ID: 19272454
[TBL] [Abstract][Full Text] [Related]
12. Development and testing of an automated approach to protein docking.
Tovchigrechko A; Vakser IA
Proteins; 2005 Aug; 60(2):296-301. PubMed ID: 15981259
[TBL] [Abstract][Full Text] [Related]
13. The generalized molecular fractionation with conjugate caps/molecular mechanics method for direct calculation of protein energy.
He X; Zhang JZ
J Chem Phys; 2006 May; 124(18):184703. PubMed ID: 16709127
[TBL] [Abstract][Full Text] [Related]
14. The impact of protein flexibility on protein-protein docking.
Ehrlich LP; Nilges M; Wade RC
Proteins; 2005 Jan; 58(1):126-33. PubMed ID: 15515181
[TBL] [Abstract][Full Text] [Related]
15. Molecular dynamics simulations.
Lindahl ER
Methods Mol Biol; 2008; 443():3-23. PubMed ID: 18446279
[TBL] [Abstract][Full Text] [Related]
16. Flexible relaxation of rigid-body docking solutions.
Król M; Tournier AL; Bates PA
Proteins; 2007 Jul; 68(1):159-69. PubMed ID: 17397060
[TBL] [Abstract][Full Text] [Related]
17. Implementation of a symplectic multiple-time-step molecular dynamics algorithm, based on the united-residue mesoscopic potential energy function.
Rakowski F; Grochowski P; Lesyng B; Liwo A; Scheraga HA
J Chem Phys; 2006 Nov; 125(20):204107. PubMed ID: 17144690
[TBL] [Abstract][Full Text] [Related]
18. ROSETTALIGAND: protein-small molecule docking with full side-chain flexibility.
Meiler J; Baker D
Proteins; 2006 Nov; 65(3):538-48. PubMed ID: 16972285
[TBL] [Abstract][Full Text] [Related]
19. Energy minimizations with a combination of two knowledge-based potentials for protein folding.
de Sancho D; Rey A
J Comput Chem; 2008 Jul; 29(10):1684-92. PubMed ID: 18351603
[TBL] [Abstract][Full Text] [Related]
20. A knowledge-based energy function for protein-ligand, protein-protein, and protein-DNA complexes.
Zhang C; Liu S; Zhu Q; Zhou Y
J Med Chem; 2005 Apr; 48(7):2325-35. PubMed ID: 15801826
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]