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Determining protein topology from skeletons of secondary structures.
Wu Y, Chen M, Lu M, Wang Q, Ma J. Wu Y, et al. Among authors: chen m. J Mol Biol. 2005 Jul 15;350(3):571-86. doi: 10.1016/j.jmb.2005.04.064. J Mol Biol. 2005. PMID: 15961102
Folding of small helical proteins assisted by small-angle X-ray scattering profiles.
Wu Y, Tian X, Lu M, Chen M, Wang Q, Ma J. Wu Y, et al. Among authors: chen m. Structure. 2005 Nov;13(11):1587-97. doi: 10.1016/j.str.2005.07.023. Structure. 2005. PMID: 16271882
Unfolding of heptameric co-chaperonin protein follows "fly casting" mechanism: observation of transient nonnative heptamer.
Perham M, Chen M, Ma J, Wittung-Stafshede P. Perham M, et al. Among authors: chen m. J Am Chem Soc. 2005 Nov 30;127(47):16402-3. doi: 10.1021/ja055574o. J Am Chem Soc. 2005. PMID: 16305220
OPUS-Ca: a knowledge-based potential function requiring only Calpha positions.
Wu Y, Lu M, Chen M, Li J, Ma J. Wu Y, et al. Among authors: chen m. Protein Sci. 2007 Jul;16(7):1449-63. doi: 10.1110/ps.072796107. Protein Sci. 2007. PMID: 17586777 Free PMC article.
Molecular docking study of the interactions between the thioesterase domain of human fatty acid synthase and its ligands.
Cheng F, Wang Q, Chen M, Quiocho FA, Ma J. Cheng F, et al. Among authors: chen m. Proteins. 2008 Mar;70(4):1228-34. doi: 10.1002/prot.21615. Proteins. 2008. PMID: 17847090
OPUS-Dom: applying the folding-based method VECFOLD to determine protein domain boundaries.
Wu Y, Dousis AD, Chen M, Li J, Ma J. Wu Y, et al. Among authors: chen m. J Mol Biol. 2009 Jan 30;385(4):1314-29. doi: 10.1016/j.jmb.2008.10.093. Epub 2008 Nov 10. J Mol Biol. 2009. PMID: 19026662 Free PMC article.
Effect of inorganic phosphate on FMN binding and loop flexibility in Desulfovibrio desulfuricans apo-flavodoxin.
Muralidhara BK, Chen M, Ma J, Wittung-Stafshede P. Muralidhara BK, et al. Among authors: chen m. J Mol Biol. 2005 May 27;349(1):87-97. doi: 10.1016/j.jmb.2005.03.054. Epub 2005 Apr 7. J Mol Biol. 2005. PMID: 15876370
Correlation between protein stability cores and protein folding kinetics: a case study on Pseudomonas aeruginosa apo-azurin.
Chen M, Wilson CJ, Wu Y, Wittung-Stafshede P, Ma J. Chen M, et al. Structure. 2006 Sep;14(9):1401-10. doi: 10.1016/j.str.2006.07.007. Structure. 2006. PMID: 16962971
Altering residues N125 and D149 impacts sugar effector binding and allosteric parameters in Escherichia coli lactose repressor.
Xu J, Liu S, Chen M, Ma J, Matthews KS. Xu J, et al. Among authors: chen m. Biochemistry. 2011 Oct 25;50(42):9002-13. doi: 10.1021/bi200896t. Epub 2011 Sep 30. Biochemistry. 2011. PMID: 21928765 Free PMC article.
Predicting protein folding cores by empirical potential functions.
Chen M, Dousis AD, Wu Y, Wittung-Stafshede P, Ma J. Chen M, et al. Arch Biochem Biophys. 2009 Mar 1;483(1):16-22. doi: 10.1016/j.abb.2008.12.011. Epub 2008 Dec 27. Arch Biochem Biophys. 2009. PMID: 19135974 Free PMC article.
In our previous work (Chen et al., Structure, 14 (2006) 1401), we developed a set of empirical potential functions and used them to analyze interaction energies among secondary-structure elements in two beta-sandwich proteins. ...
In our previous work (Chen et al., Structure, 14 (2006) 1401), we developed a set of empirical potential functions and used them to a …
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