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Results: 1 to 20 of 67


Structural Perspectives on the Evolutionary Expansion of Unique Protein-Protein Binding Sites.

Goncearenco A, Shaytan AK, Shoemaker BA, Panchenko AR.

Biophys J. 2015 Jul 23. pii: S0006-3495(15)00667-0. doi: 10.1016/j.bpj.2015.06.056. [Epub ahead of print]


Editorial overview: Linking protein sequence and structural changes to function in the era of next-generation sequencing.

Panchenko AR, Babu MM.

Curr Opin Struct Biol. 2015 Jun;32:viii-x. doi: 10.1016/ No abstract available.


6 Combined influence of linker DNA and histone tails on nucleosome dynamics as revealed by microsecond molecular dynamics simulations.

Shaytan AK, Armeev GA, Goncearenco A, Zhurkin VB, Landsman D, Panchenko AR.

J Biomol Struct Dyn. 2015 May;33 Suppl 1:3. doi: 10.1080/07391102.2015.1032630. No abstract available.


Nucleosome adaptability conferred by sequence and structural variations in histone H2A-H2B dimers.

Shaytan AK, Landsman D, Panchenko AR.

Curr Opin Struct Biol. 2015 Jun;32:48-57. doi: 10.1016/ Epub 2015 Feb 27. Review.


Crosstalk between signaling pathways provided by single and multiple protein phosphorylation sites.

Nishi H, Demir E, Panchenko AR.

J Mol Biol. 2015 Jan 30;427(2):511-20. doi: 10.1016/j.jmb.2014.11.001. Epub 2014 Nov 9.


Physicochemical mechanisms of protein regulation by phosphorylation.

Nishi H, Shaytan A, Panchenko AR.

Front Genet. 2014 Aug 7;5:270. doi: 10.3389/fgene.2014.00270. eCollection 2014. Review.


Coverage of protein domain families with structural protein-protein interactions: current progress and future trends.

Goncearenco A, Shoemaker BA, Zhang D, Sarychev A, Panchenko AR.

Prog Biophys Mol Biol. 2014 Nov-Dec;116(2-3):187-93. doi: 10.1016/j.pbiomolbio.2014.05.005. Epub 2014 Jun 13.


Predicting the Impact of Missense Mutations on Protein-Protein Binding Affinity.

Li M, Petukh M, Alexov E, Panchenko AR.

J Chem Theory Comput. 2014 Apr 8;10(4):1770-1780. Epub 2014 Feb 27.


Computational large-scale mapping of protein-protein interactions using structural complexes.

Shoemaker B, Wuchty S, Panchenko AR.

Curr Protoc Protein Sci. 2013 Sep 24;73:Unit 3.9. doi: 10.1002/0471140864.ps0309s73.


Molecular mechanisms of disease-causing missense mutations.

Stefl S, Nishi H, Petukh M, Panchenko AR, Alexov E.

J Mol Biol. 2013 Nov 1;425(21):3919-36. doi: 10.1016/j.jmb.2013.07.014. Epub 2013 Jul 16. Review.


Cancer missense mutations alter binding properties of proteins and their interaction networks.

Nishi H, Tyagi M, Teng S, Shoemaker BA, Hashimoto K, Alexov E, Wuchty S, Panchenko AR.

PLoS One. 2013 Jun 14;8(6):e66273. doi: 10.1371/journal.pone.0066273. Print 2013.


Mutations in DNA-binding loop of NFAT5 transcription factor produce unique outcomes on protein-DNA binding and dynamics.

Li M, Shoemaker BA, Thangudu RR, Ferraris JD, Burg MB, Panchenko AR.

J Phys Chem B. 2013 Oct 24;117(42):13226-34. doi: 10.1021/jp403310a. Epub 2013 Jun 25.


Evolutionary, physicochemical, and functional mechanisms of protein homooligomerization.

Nishi H, Hashimoto K, Madej T, Panchenko AR.

Prog Mol Biol Transl Sci. 2013;117:3-24. doi: 10.1016/B978-0-12-386931-9.00001-5. Review.


Regulation of protein-protein binding by coupling between phosphorylation and intrinsic disorder: analysis of human protein complexes.

Nishi H, Fong JH, Chang C, Teichmann SA, Panchenko AR.

Mol Biosyst. 2013 Jul;9(7):1620-6. doi: 10.1039/c3mb25514j. Epub 2013 Jan 30.


Oncogenic potential is related to activating effect of cancer single and double somatic mutations in receptor tyrosine kinases.

Hashimoto K, Rogozin IB, Panchenko AR.

Hum Mutat. 2012 Nov;33(11):1566-75. doi: 10.1002/humu.22145. Epub 2012 Jul 16.


SPEER-SERVER: a web server for prediction of protein specificity determining sites.

Chakraborty A, Mandloi S, Lanczycki CJ, Panchenko AR, Chakrabarti S.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W242-8. doi: 10.1093/nar/gks559. Epub 2012 Jun 11.


Homology inference of protein-protein interactions via conserved binding sites.

Tyagi M, Thangudu RR, Zhang D, Bryant SH, Madej T, Panchenko AR.

PLoS One. 2012;7(1):e28896. doi: 10.1371/journal.pone.0028896. Epub 2012 Jan 31.


Large-scale mapping of human protein interactome using structural complexes.

Tyagi M, Hashimoto K, Shoemaker BA, Wuchty S, Panchenko AR.

EMBO Rep. 2012 Mar 1;13(3):266-71. doi: 10.1038/embor.2011.261.


Modulating protein-protein interactions with small molecules: the importance of binding hotspots.

Thangudu RR, Bryant SH, Panchenko AR, Madej T.

J Mol Biol. 2012 Jan 13;415(2):443-53. doi: 10.1016/j.jmb.2011.12.026. Epub 2011 Dec 16.


Phosphorylation in protein-protein binding: effect on stability and function.

Nishi H, Hashimoto K, Panchenko AR.

Structure. 2011 Dec 7;19(12):1807-15. doi: 10.1016/j.str.2011.09.021.

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