Computational Biophysics and Bioinformatics

K. Talley, P. Kundrotas, and E. Alexov
Modeling salt dependence of protein-protein association: Linear vs non-linear Poisson-Boltzmann equation
Commun Comput Phys, 3(5), 1071-1086, 2008
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K. Talley, C. Ng, M. Shoppell, P. Kundrotas, and E. Alexov
On the electrostatic component of protein-protein binding free energy
PMC biophysics, 1(1), 1-23, 2008
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P. J. Kundrotas, M. F. Lensink, and E. Alexov
Homology-based modeling of 3D structures of protein--protein complexes using alignments of modified sequence profiles
International journal of biological macromolecules, 43(2), 198-208, 2008
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P. Kundrotas, P. Georgieva, A. Shosheva, P. Christova, and E. Alexov
BANMOKI: A searchable database of homology-based 3D models and their electrostatic properties of five bacterial nucleoside monophosphate kinase families
International journal of biological macromolecules, 41(1), 114-119, 2007
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P. Kundrotas and E. Alexov
Predicting interacting and interfacial residues using continuous sequence segments
International journal of biological macromolecules, 41(5), 615-623, 2007
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P. Kundrotas, P. Georgieva, A. Shosheva, P. Christova, and E. Alexov
Assessing the quality of the homology-modeled 3D structures from electrostatic standpoint: test on bacterial nucleoside monophosphate kinase families
Journal of bioinformatics and computational biology, 5(3), 693-715, 2007
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K. Brock, K. Talley, K. Coley, P. Kundrotas, and E. Alexov
Optimization of electrostatic interactions in protein-protein complexes
Biophysical journal, 93(10), 3340-3352, 2007
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P. J. Kundrotas and E. Alexov
PROTCOM: searchable database of protein complexes enhanced with domain--domain structures
Nucleic Acids Research, 35(1), D575-D579, 2007
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P. J. Kundrotas and E. Alexov
Predicting 3D structures of transient protein--protein complexes by homology
Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics, 1764(9), 1498-1511, 2006
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P. J. Kundrotas and E. G. Alexov
Predicting residue contacts using pragmatic correlated mutations method: reducing the false positives
BMC bioinformatics, 7(1), 1-9, 2006
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P. J. Kundrotas and E. Alexov
Electrostatic properties of protein-protein complexes
Biophysical journal, 91(5), 1724-1736, 2006
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Computational Biophysics and Bioinformatics

Professor Emil Alexov Group

Journal Articles by P. Kundrotas

Conference Papers