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.
143 related articles for article (PubMed ID: 11566759)
1. Calculations of free-energy contributions to protein-RNA complex stabilization. Olson MA Biophys J; 2001 Oct; 81(4):1841-53. PubMed ID: 11566759 [TBL] [Abstract][Full Text] [Related]
2. Structure and thermodynamics of RNA-protein binding: using molecular dynamics and free energy analyses to calculate the free energies of binding and conformational change. Reyes CM; Kollman PA J Mol Biol; 2000 Apr; 297(5):1145-58. PubMed ID: 10764579 [TBL] [Abstract][Full Text] [Related]
3. Affinity and specificity of protein U1A-RNA complex formation based on an additive component free energy model. Kormos BL; Benitex Y; Baranger AM; Beveridge DL J Mol Biol; 2007 Aug; 371(5):1405-19. PubMed ID: 17603075 [TBL] [Abstract][Full Text] [Related]
4. Molecular dynamics simulations of the complex between human U1A protein and hairpin II of U1 small nuclear RNA and of free RNA in solution. Tang Y; Nilsson L Biophys J; 1999 Sep; 77(3):1284-305. PubMed ID: 10465742 [TBL] [Abstract][Full Text] [Related]
5. Investigating the binding specificity of U1A-RNA by computational mutagenesis. Reyes CM; Kollman PA J Mol Biol; 2000 Jan; 295(1):1-6. PubMed ID: 10623503 [TBL] [Abstract][Full Text] [Related]
6. GBr6NL: a generalized Born method for accurately reproducing solvation energy of the nonlinear Poisson-Boltzmann equation. Tjong H; Zhou HX J Chem Phys; 2007 May; 126(19):195102. PubMed ID: 17523838 [TBL] [Abstract][Full Text] [Related]
7. Electrostatic contributions to protein-protein binding affinities: application to Rap/Raf interaction. Muegge I; Schweins T; Warshel A Proteins; 1998 Mar; 30(4):407-23. PubMed ID: 9533625 [TBL] [Abstract][Full Text] [Related]
8. Simulations of the dynamics at an RNA-protein interface. Hermann T; Westhof E Nat Struct Biol; 1999 Jun; 6(6):540-4. PubMed ID: 10360356 [TBL] [Abstract][Full Text] [Related]
9. Modeling loop reorganization free energies of acetylcholinesterase: a comparison of explicit and implicit solvent models. Olson MA Proteins; 2004 Dec; 57(4):645-50. PubMed ID: 15481087 [TBL] [Abstract][Full Text] [Related]
11. Prediction of salt and mutational effects on the association rate of U1A protein and U1 small nuclear RNA stem/loop II. Qin S; Zhou HX J Phys Chem B; 2008 May; 112(19):5955-60. PubMed ID: 18154282 [TBL] [Abstract][Full Text] [Related]
12. High-resolution structural validation of the computational redesign of human U1A protein. Dobson N; Dantas G; Baker D; Varani G Structure; 2006 May; 14(5):847-56. PubMed ID: 16698546 [TBL] [Abstract][Full Text] [Related]
13. Binding free energies and free energy components from molecular dynamics and Poisson-Boltzmann calculations. Application to amino acid recognition by aspartyl-tRNA synthetase. Archontis G; Simonson T; Karplus M J Mol Biol; 2001 Feb; 306(2):307-27. PubMed ID: 11237602 [TBL] [Abstract][Full Text] [Related]
14. Examining methods for calculations of binding free energies: LRA, LIE, PDLD-LRA, and PDLD/S-LRA calculations of ligands binding to an HIV protease. Sham YY; Chu ZT; Tao H; Warshel A Proteins; 2000 Jun; 39(4):393-407. PubMed ID: 10813821 [TBL] [Abstract][Full Text] [Related]
15. Molecular dynamics simulation studies of a protein-RNA complex with a selectively modified binding interface. Zhao Y; Kormos BL; Beveridge DL; Baranger AM Biopolymers; 2006 Mar; 81(4):256-69. PubMed ID: 16278830 [TBL] [Abstract][Full Text] [Related]
16. Changes in side-chain and backbone dynamics identify determinants of specificity in RNA recognition by human U1A protein. Mittermaier A; Varani L; Muhandiram DR; Kay LE; Varani G J Mol Biol; 1999 Dec; 294(4):967-79. PubMed ID: 10588900 [TBL] [Abstract][Full Text] [Related]
17. A study of collective atomic fluctuations and cooperativity in the U1A-RNA complex based on molecular dynamics simulations. Kormos BL; Baranger AM; Beveridge DL J Struct Biol; 2007 Mar; 157(3):500-13. PubMed ID: 17194603 [TBL] [Abstract][Full Text] [Related]
18. Molecular dynamics simulation studies of induced fit and conformational capture in U1A-RNA binding: do molecular substates code for specificity? Pitici F; Beveridge DL; Baranger AM Biopolymers; 2002 Dec; 65(6):424-35. PubMed ID: 12434430 [TBL] [Abstract][Full Text] [Related]
19. Converging free energy estimates: MM-PB(GB)SA studies on the protein-protein complex Ras-Raf. Gohlke H; Case DA J Comput Chem; 2004 Jan; 25(2):238-50. PubMed ID: 14648622 [TBL] [Abstract][Full Text] [Related]
20. Global and local dynamics of the U1A polyadenylation inhibition element (PIE) RNA and PIE RNA-U1A complexes. Clerte C; Hall KB Biochemistry; 2004 Oct; 43(42):13404-15. PubMed ID: 15491147 [TBL] [Abstract][Full Text] [Related] [Next] [New Search]