TY - JOUR
T1 - Classification of common functional loops of kinase super-families
AU - Fernandez-Fuentes, Narcis
AU - Hermoso, Antoni
AU - Espadaler, Jordi
AU - Querol, Enrique
AU - Aviles, Francesc X
AU - Oliva, Baldomero
N1 - Fernandez-Fuentes, N., Hermoso, A., Espadaler, J., Querol, E., Aviles, F. X., Oliva, B. (2004). Classification of common functional loops of kinase super-families. Biochimica et Biophysica Acta-Proteins and Proteomics, 56 (3), 539-555.
Copyright 2004 Wiley-Liss, Inc.
PY - 2004/8/15
Y1 - 2004/8/15
N2 - A structural classification of loops has been obtained from a set of 141 protein structures classified as kinases. A total of 1813 loops was classified into 133 subclasses (9 betabeta(links), 15 betabeta(hairpins), 31 alpha-alpha, 46 alpha-beta and 32 beta-alpha). Functional information and specific features relating subclasses and function were included in the classification. Functional loops such as the P-loop (shared by different folds) or the Gly-rich-loop, among others, were classified into structural motifs. As a result, a common mechanism of catalysis and substrate binding was proved for most kinases. Additionally, the multiple-alignment of loop sequences made within each subclass was shown to be useful for comparative modeling of kinase loops. The classification is summarized in a kinase loop database located at http://sbi.imim.es/archki.
AB - A structural classification of loops has been obtained from a set of 141 protein structures classified as kinases. A total of 1813 loops was classified into 133 subclasses (9 betabeta(links), 15 betabeta(hairpins), 31 alpha-alpha, 46 alpha-beta and 32 beta-alpha). Functional information and specific features relating subclasses and function were included in the classification. Functional loops such as the P-loop (shared by different folds) or the Gly-rich-loop, among others, were classified into structural motifs. As a result, a common mechanism of catalysis and substrate binding was proved for most kinases. Additionally, the multiple-alignment of loop sequences made within each subclass was shown to be useful for comparative modeling of kinase loops. The classification is summarized in a kinase loop database located at http://sbi.imim.es/archki.
KW - protein-loops classification
KW - P-loop
KW - protein-motifs
KW - kinases
KW - comparative modeling
UR - http://hdl.handle.net/2160/9011
U2 - 10.1002/prot.20136
DO - 10.1002/prot.20136
M3 - Article
C2 - 15229886
SN - 0887-3585
VL - 56
SP - 539
EP - 555
JO - Proteins: Structure, Function and Genetics
JF - Proteins: Structure, Function and Genetics
IS - 3
ER -