Protein computer

What Lessons Are To Be Learned from Computational Protein Folding Research ... 

WHAT LESSONS ARE TO BE LEARNED FROM COMPUTATIONAL PROTEIN FOLDING RESEARCH ... 

Jaramillo A, Wodak SJ. Computational protein design is a challenge for implicit solvation models. Biophys J 2005 88 156-71. 

Dantas G, Kuhlman B, Callender D, Wong M, Baker D. A large scale test of computational protein design folding and stability of nine completely redesigned globular proteins. J Mol Biol 2003 332 449-60. 

Park S, Yang X, Saven JG. Advances in computational protein design. Curr Opin Struct Biol 2004 14 487-94. 

Street, A. G., Mayo, S. L., Computational protein design, Structure 1999, 7, R105-R109... 

Hellinga, H. W (1998). Computational Protein Engineering. Nat Struct Biol 5 525. 

It is obvious that we cannot review exhaustively a field as active as computational protein chemistry is today. All that we can hope to do is to classify some of the approaches to problems currently recognized as (or at least deemed by consensus to be) interesting ones. 

Protein Thermodynamics Protein Interactions Computational Protein Design Conclusions... 

The applications of the chemistry of amino acids to the biological problem, protein structure and function, and folding and stability are the main focus of this article. The article is divided into hve main sections that include the biological insights on protein structures, chemical applications including protein functions, thermodynamics of proteins, protein interactions, and computational protein design. 

Lippow SM, Tidor B. Progress in computational protein design. Curr. Opin. Biotechnol. 2007 18 305-311. 

Bolon DN, Grant RA, Baker TA, Sauer RT. Specificity versus stability in computational protein design. Proc. Natl. Acad. Sci. U.S.A. 2005 102 12724-12729. 

Computational protein-ligand docking is widely used nowadays to select compounds for biological screening [23], In the field of ADME/Tox, where... 

Schmidt am Busch M, Sedano A, Simonson T (2010) Computational protein design validation and possible relevance as a tool for homology searching and fold recognition. PLoS ONE 5(5) el0410... 

Pleiss J (2011) Protein design in synthetic biology. Curr Opin Biotechnol 22 611-617 Samish 1, Perez-Aguilar JM, Saven JG (2011) Theoretical and computational protein design. Annu Rev Phys Chem 62 129-149... 

Schmidt am Busch M, Lopes A, Mignon D, Simonson T (2008) Computational protein design software implementation, parameter optimization, and performance of a simple model. J Comput Chem 29 1092-1102... 

Vizcarra CL, Zhang NG, Marshall SA, Wingreen NS, Zeng C, Mayo SL (2008) An improved pairwise decomposable finite-difference Poisson-Boltzmann method for computational protein design. J Comput Chem 29 1153-1162... 

Kufareva, I., Abagyan, R. (2009) Predicting Molecular Interactions in Structural Pro-teomics. In Computational Protein-Protein Interactions, Nussinov, R., Schreiber, G., Eds. Taylor and Francis, CRC press. 

Q Tools for Computational Protein Annotation and Function Assignment... 

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