These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
Pubmed for Handhelds
PUBMED FOR HANDHELDS
Journal Abstract Search
497 related items for PubMed ID: 11913380
1. Identifying native-like protein structures using physics-based potentials. Dominy BN, Brooks CL. J Comput Chem; 2002 Jan 15; 23(1):147-60. PubMed ID: 11913380 [Abstract] [Full Text] [Related]
2. Distinguishing native conformations of proteins from decoys with an effective free energy estimator based on the OPLS all-atom force field and the Surface Generalized Born solvent model. Felts AK, Gallicchio E, Wallqvist A, Levy RM. Proteins; 2002 Aug 01; 48(2):404-22. PubMed ID: 12112706 [Abstract] [Full Text] [Related]
3. Discrimination of the native from misfolded protein models with an energy function including implicit solvation. Lazaridis T, Karplus M. J Mol Biol; 1999 May 07; 288(3):477-87. PubMed ID: 10329155 [Abstract] [Full Text] [Related]
4. How well can we predict native contacts in proteins based on decoy structures and their energies? Zhu J, Zhu Q, Shi Y, Liu H. Proteins; 2003 Sep 01; 52(4):598-608. PubMed ID: 12910459 [Abstract] [Full Text] [Related]
5. Distinguish protein decoys by using a scoring function based on a new AMBER force field, short molecular dynamics simulations, and the generalized born solvent model. Lee MC, Duan Y. Proteins; 2004 May 15; 55(3):620-34. PubMed ID: 15103626 [Abstract] [Full Text] [Related]
6. Discrimination of near-native protein structures from misfolded models by empirical free energy functions. Gatchell DW, Dennis S, Vajda S. Proteins; 2000 Dec 01; 41(4):518-34. PubMed ID: 11056039 [Abstract] [Full Text] [Related]
11. Discrimination between native and intentionally misfolded conformations of proteins: ES/IS, a new method for calculating conformational free energy that uses both dynamics simulations with an explicit solvent and an implicit solvent continuum model. Vorobjev YN, Almagro JC, Hermans J. Proteins; 1998 Sep 01; 32(4):399-413. PubMed ID: 9726412 [Abstract] [Full Text] [Related]
13. Physical scoring function based on AMBER force field and Poisson-Boltzmann implicit solvent for protein structure prediction. Hsieh MJ, Luo R. Proteins; 2004 Aug 15; 56(3):475-86. PubMed ID: 15229881 [Abstract] [Full Text] [Related]
14. Performance comparison of generalized born and Poisson methods in the calculation of electrostatic solvation energies for protein structures. Feig M, Onufriev A, Lee MS, Im W, Case DA, Brooks CL. J Comput Chem; 2004 Jan 30; 25(2):265-84. PubMed ID: 14648625 [Abstract] [Full Text] [Related]
15. MOPED: method for optimizing physical energy parameters using decoys. Seok C, Rosen JB, Chodera JD, Dill KA. J Comput Chem; 2003 Jan 15; 24(1):89-97. PubMed ID: 12483678 [Abstract] [Full Text] [Related]
17. A reduced protein model with accurate native-structure identification ability. Betancourt MR. Proteins; 2003 Dec 01; 53(4):889-907. PubMed ID: 14635131 [Abstract] [Full Text] [Related]