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.
195 related articles for article (PubMed ID: 17006949)
1. SPINFAST: using structure alignment profiles to enhance the accuracy and assess the reliability of protein side-chain modeling. Poleksic A; Danzer JF; Palmer BA; Olafson BD; Debe DA Proteins; 2006 Dec; 65(4):953-8. PubMed ID: 17006949 [TBL] [Abstract][Full Text] [Related]
2. 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]
3. Modeling side-chain conformation for homologous proteins using an energy-based rotamer search. Wilson C; Gregoret LM; Agard DA J Mol Biol; 1993 Feb; 229(4):996-1006. PubMed ID: 8445659 [TBL] [Abstract][Full Text] [Related]
4. An automated method for modeling proteins on known templates using distance geometry. Srinivasan S; March CJ; Sudarsanam S Protein Sci; 1993 Feb; 2(2):277-89. PubMed ID: 8443604 [TBL] [Abstract][Full Text] [Related]
5. High accuracy template based modeling by global optimization. Joo K; Lee J; Lee S; Seo JH; Lee SJ; Lee J Proteins; 2007; 69 Suppl 8():83-9. PubMed ID: 17894332 [TBL] [Abstract][Full Text] [Related]
6. Refinement of protein cores and protein-peptide interfaces using a potential scaling approach. Riemann RN; Zacharias M Protein Eng Des Sel; 2005 Oct; 18(10):465-76. PubMed ID: 16155119 [TBL] [Abstract][Full Text] [Related]
7. Incorporating knowledge-based biases into an energy-based side-chain modeling method: application to comparative modeling of protein structure. Mendes J; Nagarajaram HA; Soares CM; Blundell TL; Carrondo MA Biopolymers; 2001 Aug; 59(2):72-86. PubMed ID: 11373721 [TBL] [Abstract][Full Text] [Related]
8. How similar must a template protein be for homology modeling by side-chain packing methods? Chung SY; Subbiah S Pac Symp Biocomput; 1996; ():126-41. PubMed ID: 9390228 [TBL] [Abstract][Full Text] [Related]
9. Comparison of Composer and ORCHESTRAR. Dolan MA; Keil M; Baker DS Proteins; 2008 Sep; 72(4):1243-58. PubMed ID: 18361454 [TBL] [Abstract][Full Text] [Related]
10. Homology modeling by the ICM method. Cardozo T; Totrov M; Abagyan R Proteins; 1995 Nov; 23(3):403-14. PubMed ID: 8710833 [TBL] [Abstract][Full Text] [Related]
11. Homology modeling of an RNP domain from a human RNA-binding protein: Homology-constrained energy optimization provides a criterion for distinguishing potential sequence alignments. Sahasrabudhe PV; Tejero R; Kitao S; Furuichi Y; Montelione GT Proteins; 1998 Dec; 33(4):558-66. PubMed ID: 9849939 [TBL] [Abstract][Full Text] [Related]
12. Methods for accurate homology modeling by global optimization. Joo K; Lee J; Lee J Methods Mol Biol; 2012; 857():175-88. PubMed ID: 22323221 [TBL] [Abstract][Full Text] [Related]
13. Modeling protein loops with knowledge-based prediction of sequence-structure alignment. Peng HP; Yang AS Bioinformatics; 2007 Nov; 23(21):2836-42. PubMed ID: 17827204 [TBL] [Abstract][Full Text] [Related]
14. A method to configure protein side-chains from the main-chain trace in homology modelling. Eisenmenger F; Argos P; Abagyan R J Mol Biol; 1993 Jun; 231(3):849-60. PubMed ID: 8515455 [TBL] [Abstract][Full Text] [Related]
15. Andante: reducing side-chain rotamer search space during comparative modeling using environment-specific substitution probabilities. Smith RE; Lovell SC; Burke DF; Montalvao RW; Blundell TL Bioinformatics; 2007 May; 23(9):1099-105. PubMed ID: 17341496 [TBL] [Abstract][Full Text] [Related]
17. Comparison of the efficiency of evolutionary change-based and side chain orientation-based fold recognition potentials. Vishnepolsky B; Managadze G; Pirtskhalava M Proteins; 2008 Jun; 71(4):1863-78. PubMed ID: 18175309 [TBL] [Abstract][Full Text] [Related]
18. Improving amino-acid identification, fit and C(alpha) prediction using the Simplex method in automated model building. Romo TD; Sacchettini JC; Ioerger TR Acta Crystallogr D Biol Crystallogr; 2006 Nov; 62(Pt 11):1401-6. PubMed ID: 17057345 [TBL] [Abstract][Full Text] [Related]
19. Relationship between multiple sequence alignments and quality of protein comparative models. Cozzetto D; Tramontano A Proteins; 2005 Jan; 58(1):151-7. PubMed ID: 15495137 [TBL] [Abstract][Full Text] [Related]
20. Application of a self-consistent mean field theory to predict protein side-chains conformation and estimate their conformational entropy. Koehl P; Delarue M J Mol Biol; 1994 Jun; 239(2):249-75. PubMed ID: 8196057 [TBL] [Abstract][Full Text] [Related] [Next] [New Search]