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.
263 related articles for article (PubMed ID: 31851497)
21. Backbone-dependent rotamer library for proteins. Application to side-chain prediction. Dunbrack RL; Karplus M J Mol Biol; 1993 Mar; 230(2):543-74. PubMed ID: 8464064 [TBL] [Abstract][Full Text] [Related]
22. Protein design using continuous rotamers. Gainza P; Roberts KE; Donald BR PLoS Comput Biol; 2012 Jan; 8(1):e1002335. PubMed ID: 22279426 [TBL] [Abstract][Full Text] [Related]
23. Excluded volume in protein side-chain packing. Kussell E; Shimada J; Shakhnovich EI J Mol Biol; 2001 Aug; 311(1):183-93. PubMed ID: 11469867 [TBL] [Abstract][Full Text] [Related]
24. Improved packing of protein side chains with parallel ant colonies. Quan L; Lü Q; Li H; Xia X; Wu H BMC Bioinformatics; 2014; 15 Suppl 12(Suppl 12):S5. PubMed ID: 25474164 [TBL] [Abstract][Full Text] [Related]
25. Beyond rotamers: a generative, probabilistic model of side chains in proteins. Harder T; Boomsma W; Paluszewski M; Frellsen J; Johansson KE; Hamelryck T BMC Bioinformatics; 2010 Jun; 11():306. PubMed ID: 20525384 [TBL] [Abstract][Full Text] [Related]
26. Prediction of protein side-chain rotamers from a backbone-dependent rotamer library: a new homology modeling tool. Bower MJ; Cohen FE; Dunbrack RL J Mol Biol; 1997 Apr; 267(5):1268-82. PubMed ID: 9150411 [TBL] [Abstract][Full Text] [Related]
27. Do rotamer libraries reproduce the side-chain conformations of peptidic ligands from the PDB? Pupo A; Moreno E J Mol Graph Model; 2009 Jan; 27(5):611-9. PubMed ID: 19028123 [TBL] [Abstract][Full Text] [Related]
28. Improved modeling of side-chain--base interactions and plasticity in protein--DNA interface design. Thyme SB; Baker D; Bradley P J Mol Biol; 2012 Jun; 419(3-4):255-74. PubMed ID: 22426128 [TBL] [Abstract][Full Text] [Related]
29. Residues with similar hexagon neighborhoods share similar side-chain conformations. Li SC; Bu D; Li M IEEE/ACM Trans Comput Biol Bioinform; 2012; 9(1):240-8. PubMed ID: 21519113 [TBL] [Abstract][Full Text] [Related]
30. IRECS: a new algorithm for the selection of most probable ensembles of side-chain conformations in protein models. Hartmann C; Antes I; Lengauer T Protein Sci; 2007 Jul; 16(7):1294-307. PubMed ID: 17567749 [TBL] [Abstract][Full Text] [Related]
31. Backbone dependency further improves side chain prediction efficiency in the Energy-based Conformer Library (bEBL). Subramaniam S; Senes A Proteins; 2014 Nov; 82(11):3177-87. PubMed ID: 25212195 [TBL] [Abstract][Full Text] [Related]
32. Free energies of amino acid side-chain rotamers in alpha-helices, beta-sheets and alpha-helix N-caps. Stapley BJ; Doig AJ J Mol Biol; 1997 Sep; 272(3):456-64. PubMed ID: 9325103 [TBL] [Abstract][Full Text] [Related]
33. Using information theory to discover side chain rotamer classes: analysis of the effects of local backbone structure. Fetrow JS; Berg G Pac Symp Biocomput; 1999; ():278-89. PubMed ID: 10380204 [TBL] [Abstract][Full Text] [Related]
34. A rotamer library to enable modeling and design of peptoid foldamers. Renfrew PD; Craven TW; Butterfoss GL; Kirshenbaum K; Bonneau R J Am Chem Soc; 2014 Jun; 136(24):8772-82. PubMed ID: 24823488 [TBL] [Abstract][Full Text] [Related]
35. Solvent Accessibility Promotes Rotamer Errors during Protein Modeling with Major Side-Chain Prediction Programs. Hameduh T; Mokry M; Miller AD; Heger Z; Haddad Y J Chem Inf Model; 2023 Jul; 63(14):4405-4422. PubMed ID: 37410883 [TBL] [Abstract][Full Text] [Related]
36. Computing van der Waals energies in the context of the rotamer approximation. Grigoryan G; Ochoa A; Keating AE Proteins; 2007 Sep; 68(4):863-78. PubMed ID: 17554777 [TBL] [Abstract][Full Text] [Related]
37. Prediction of protein side chain conformations: a study on the influence of backbone accuracy on conformation stability in the rotamer space. Tufféry P; Etchebest C; Hazout S Protein Eng; 1997 Apr; 10(4):361-72. PubMed ID: 9194160 [TBL] [Abstract][Full Text] [Related]
38. The penultimate rotamer library. Lovell SC; Word JM; Richardson JS; Richardson DC Proteins; 2000 Aug; 40(3):389-408. PubMed ID: 10861930 [TBL] [Abstract][Full Text] [Related]
39. Rotamer Libraries for the High-Resolution Design of β-Amino Acid Foldamers. Watkins AM; Craven TW; Renfrew PD; Arora PS; Bonneau R Structure; 2017 Nov; 25(11):1771-1780.e3. PubMed ID: 29033287 [TBL] [Abstract][Full Text] [Related]
40. Analysis of side-chain rotamers in transmembrane proteins. Chamberlain AK; Bowie JU Biophys J; 2004 Nov; 87(5):3460-9. PubMed ID: 15339811 [TBL] [Abstract][Full Text] [Related] [Previous] [Next] [New Search]