Identification binding sites

Halgren T (2007) New method for fast and accurate binding-site identification and analysis. Chem Biol Drug Design 69 146-148... 

Hernandez M, Ghersi D, Sanchez R (2009) SITEHOUND-web a server for ligand binding site identification in protein structures. Nucleic Acids Res 37 W413-W416... 

Figure 2-12 Simplified overview of the mechanism of action of SMlD-based SM target profiling and protein SM binding site identification.

Czajkowski, C., Karlin, A., 1995. Structure of the nicotinic receptor acetylcholine-binding site. Identification of acidic residues in the 8 subunit within 0.9 nm of the a subunit-binding site disulfide. J. Biol. Chem. 270, 3160-3164. 

Guvench O, MacKerell AD Jr (2009) Computational fragment-based binding site identification by ligand competitive saturation. PLoS Comput Biol 5 el000435... 

R270 J. J. Ziarek, F. C. Peterson, B. L. Lytle and B. F. Volkman, Binding Site Identification and Structure Determination of Protein-Ligand Complexes by NMR A Semiautomated Approach , in Methods in Enzymology, ed. L. Kuo, Elsevier Inc., 2011, Vol. 493, Fragment-Based Drug Design Tools, Practical Approaches, and Examples, p. 241. 

In a considerable number of cases, peptidyl-tRNA affinity probes were shown to modify primarily not the ribosomal proteins, but the 23 S rRNA. Further characterization of modified sites was obtained by splitting of the 23 S rRNA into 13 S and 18 S fragments including the 5 third and the 3 two-thirds of the molecule, respectively. Mapping of tRNA Binding Sites. Identification of ribosomal components interacting with parts of tRNA other than the 3 end has been attempted by preparing tRNAs derivatized in odd bases with photosensitive residues. Affinity probes are listed in Table III. Assays for func-... 

Love RA, Parge HE, Yu X, Hickey MJ, Diehl W, Gao J, Wriggers H, Ekker A, Wang L, Thomson JA, Dragovich PS, Fuhrman SA (2003) Crystallographic identification of a noncompetitive inhibitor binding site on the hepatitis C vims NS5B RNA polymerase enzyme. J Virol 77 7575-7581... 

Scholz B, Rechter S, Drach JC, Townsend LB, Bogner E (2003) Identification of the ATP-binding site in the terminase subunit pUL56 of human cytomegalovims. Nucleic Adds Res 31 1426-1433... 

Cavasotto C, Orry AJW, Abagyan R A. Strnctnre-based identification of binding sites, native ligands and potential inhibitors for G-protein coupled receptors. Proteins Structure Funct Genet 2003 51 423-33. 

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