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Electrostatics and the membrane association of Src: theory and experiment.
Murray D, Hermida-Matsumoto L, Buser CA, Tsang J, Sigal CT, Ben-Tal N, Honig B, Resh MD, McLaughlin S. Murray D, et al. Biochemistry. 1998 Feb 24;37(8):2145-59. doi: 10.1021/bi972012b. Biochemistry. 1998. PMID: 9485361
Origins of specificity in protein-DNA recognition.
Rohs R, Jin X, West SM, Joshi R, Honig B, Mann RS. Rohs R, et al. Annu Rev Biochem. 2010;79:233-69. doi: 10.1146/annurev-biochem-060408-091030. Annu Rev Biochem. 2010. PMID: 20334529 Free PMC article. Review.
Nuance in the double-helix and its role in protein-DNA recognition.
Rohs R, West SM, Liu P, Honig B. Rohs R, et al. Curr Opin Struct Biol. 2009 Apr;19(2):171-7. doi: 10.1016/j.sbi.2009.03.002. Epub 2009 Apr 10. Curr Opin Struct Biol. 2009. PMID: 19362815 Free PMC article. Review.
Free Energy Perturbation Calculation of Relative Binding Free Energy between Broadly Neutralizing Antibodies and the gp120 Glycoprotein of HIV-1.
Clark AJ, Gindin T, Zhang B, Wang L, Abel R, Murret CS, Xu F, Bao A, Lu NJ, Zhou T, Kwong PD, Shapiro L, Honig B, Friesner RA. Clark AJ, et al. J Mol Biol. 2017 Apr 7;429(7):930-947. doi: 10.1016/j.jmb.2016.11.021. Epub 2016 Nov 28. J Mol Biol. 2017. PMID: 27908641 Free PMC article.
A hybrid method for protein-protein interface prediction.
Hwang H, Petrey D, Honig B. Hwang H, et al. Protein Sci. 2016 Jan;25(1):159-65. doi: 10.1002/pro.2744. Epub 2015 Jul 21. Protein Sci. 2016. PMID: 26178156 Free PMC article.
PredUs: a web server for predicting protein interfaces using structural neighbors.
Zhang QC, Deng L, Fisher M, Guan J, Honig B, Petrey D. Zhang QC, et al. Nucleic Acids Res. 2011 Jul;39(Web Server issue):W283-7. doi: 10.1093/nar/gkr311. Epub 2011 May 23. Nucleic Acids Res. 2011. PMID: 21609948 Free PMC article.
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