Hierarchical clustering of the correlation patterns: New method of domain identification in proteins. Export

@article{citeulike:341627, abstract = {New method of identification of dynamical domains in proteins - Hierarchical Clustering of the Correlation Patterns (HCCP) is proposed. HCCP allows to identify the domains using single three-dimensional structure of the studied proteins and does not require any adjustable parameters that can influence the results. The method is based on hierarchical clustering performed on the matrices of correlation patterns, which are obtained by the transformation of ordinary pairwise correlation matrices. This approach allows to extract additional information from the correlation matrices, which increases reliability of domain identification. It is shown that HCCP is insensitive to small variations of the pairwise correlation matrices. Particularly it produces identical results if the data obtained for the same protein crystallized with different spatial positions of domains are used for analysis. HCCP can utilize correlation matrices obtained by any method such as normal mode or essential dynamics analysis, Gaussian network or anisotropic network models, etc. These features make HCCP an attractive method for domain identification in proteins.}, address = {Department of Biophysics, Institute of Physics, National Academy of Science of Ukraine, Prospect Nauki, 46, Kiev-03039, Ukraine; A.V. Palladin Institute of Biochemistry, Leontovicha st. 9, Kiev-01030, Ukraine.}, author = {Yesylevskyy, S O O. and Kharkyanen, V N N. and Demchenko, A P P.}, citeulike-article-id = {341627}, citeulike-linkout-0 = {http://dx.doi.org/10.1016/j.bpc.2005.07.004}, citeulike-linkout-1 = {http://view.ncbi.nlm.nih.gov/pubmed/16125297}, citeulike-linkout-2 = {http://www.hubmed.org/display.cgi?uids=16125297}, citeulike-linkout-3 = {http://www.sciencedirect.com/science/article/B6TFB-4GYH814-1/2/ae401e2b5d029da5f6a8f8ebeee95a1a}, day = {24}, doi = {10.1016/j.bpc.2005.07.004}, issn = {0301-4622}, journal = {Biophys Chem}, keywords = {domain\_analysis, essential\_dynamics}, month = {August}, posted-at = {2005-10-06 00:35:00}, priority = {2}, title = {Hierarchical clustering of the correlation patterns: New method of domain identification in proteins.}, url = {http://dx.doi.org/10.1016/j.bpc.2005.07.004}, year = {2005} }

TY - JOUR ID - citeulike:341627 L3 - citeulike-article-id:341627 N2 - New method of identification of dynamical domains in proteins - Hierarchical Clustering of the Correlation Patterns (HCCP) is proposed. HCCP allows to identify the domains using single three-dimensional structure of the studied proteins and does not require any adjustable parameters that can influence the results. The method is based on hierarchical clustering performed on the matrices of correlation patterns, which are obtained by the transformation of ordinary pairwise correlation matrices. This approach allows to extract additional information from the correlation matrices, which increases reliability of domain identification. It is shown that HCCP is insensitive to small variations of the pairwise correlation matrices. Particularly it produces identical results if the data obtained for the same protein crystallized with different spatial positions of domains are used for analysis. HCCP can utilize correlation matrices obtained by any method such as normal mode or essential dynamics analysis, Gaussian network or anisotropic network models, etc. These features make HCCP an attractive method for domain identification in proteins. JF - Biophys Chem SN - 0301-4622 AD - Department of Biophysics, Institute of Physics, National Academy of Science of Ukraine, Prospect Nauki, 46, Kiev-03039, Ukraine; A.V. Palladin Institute of Biochemistry, Leontovicha st. 9, Kiev-01030, Ukraine. TI - Hierarchical clustering of the correlation patterns: New method of domain identification in proteins. KW - domain_analysis KW - essential_dynamics AU - Yesylevskyy, S O AU - Kharkyanen, V N AU - Demchenko, A P PY - 2005/08/24/ UR - http://dx.doi.org/10.1016/j.bpc.2005.07.004 ER -