Analysis and prediction of mammalian protein glycation
Glycation is a nonenzymatic process in which proteins react with reducing sugar molecules and thereby impair the function and change the characteristics of the proteins. Glycation is involved in diabetes and aging where the accumulation of glycation products causes side effects. In this study, we st...
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Published in | Glycobiology (Oxford) Vol. 16; no. 9; pp. 844 - 853 |
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Main Authors | , , |
Format | Journal Article |
Language | English |
Published |
England
Oxford University Press
01.09.2006
Oxford Publishing Limited (England) |
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Abstract | Glycation is a nonenzymatic process in which proteins react with reducing sugar molecules and thereby impair the function and change the characteristics of the proteins. Glycation is involved in diabetes and aging where the accumulation of glycation products causes side effects. In this study, we statistically investigate the glycation of ε amino groups of lysines and also train a sequence-based predictor. The statistical analysis suggests that acidic amino acids, mainly glutamate, and lysine residues catalyze the glycation of nearby lysines. The catalytic acidic amino acids are found mainly C-terminally from the glycation site, whereas the basic lysine residues are found mainly N-terminally. The predictor was made by combining 60 artificial neural networks in a balloting procedure. The cross-validated Matthews correlation coefficient for the predictor is 0.58, which is quite impressive given the relatively small amount of experimental data available. The method is made available at www.cbs.dtu.dk/services/NetGlycate-1.0. |
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AbstractList | Glycation is a nonenzymatic process in which proteins react with reducing sugar molecules and thereby impair the function and change the characteristics of the proteins. Glycation is involved in diabetes and aging where the accumulation of glycation products causes side effects. In this study, we statistically investigate the glycation of ε amino groups of lysines and also train a sequence-based predictor. The statistical analysis suggests that acidic amino acids, mainly glutamate, and lysine residues catalyze the glycation of nearby lysines. The catalytic acidic amino acids are found mainly C-terminally from the glycation site, whereas the basic lysine residues are found mainly N-terminally. The predictor was made by combining 60 artificial neural networks in a balloting procedure. The cross-validated Matthews correlation coefficient for the predictor is 0.58, which is quite impressive given the relatively small amount of experimental data available. The method is made available at www.cbs.dtu.dk/services/NetGlycate-1.0. Glycation is a nonenzymatic process in which proteins react with reducing sugar molecules and thereby impair the function and change the characteristics of the proteins. Glycation is involved in diabetes and aging where the accumulation of glycation products causes side effects. In this study, we statistically investigate the glycation of epsilon amino groups of lysines and also train a sequence-based predictor. The statistical analysis suggests that acidic amino acids, mainly glutamate, and lysine residues catalyze the glycation of nearby lysines. The catalytic acidic amino acids are found mainly C-terminally from the glycation site, whereas the basic lysine residues are found mainly N-terminally. The predictor was made by combining 60 artificial neural networks in a balloting procedure. The cross-validated Matthews correlation coefficient for the predictor is 0.58, which is quite impressive given the relatively small amount of experimental data available. The method is made available at www.cbs.dtu.dk/services/NetGlycate-1.0. Glycation is a nonenzymatic process in which proteins react with reducing sugar molecules and thereby impair the function and change the characteristics of the proteins. Glycation is involved in diabetes and aging where the accumulation of glycation products causes side effects. In this study, we statistically investigate the glycation of [varepsilon] amino groups of lysines and also train a sequence-based predictor. The statistical analysis suggests that acidic amino acids, mainly glutamate, and lysine residues catalyze the glycation of nearby lysines. The catalytic acidic amino acids are found mainly C-terminally from the glycation site, whereas the basic lysine residues are found mainly N-terminally. The predictor was made by combining 60 artificial neural networks in a balloting procedure. The cross-validated Matthews correlation coefficient for the predictor is 0.58, which is quite impressive given the relatively small amount of experimental data available. The method is made available at www.cbs.dtu.dk/services/NetGlycate-1.0. |
Author | Kiemer, Lars Johansen, Morten Bo Brunak, Søren |
Author_xml | – sequence: 1 givenname: Morten Bo surname: Johansen fullname: Johansen, Morten Bo organization: Center for Biological Sequence Analysis, BioCentrum-DTU, Technical University of Denmark, Building 208, DK-2800 Lyngby, Denmark – sequence: 2 givenname: Lars surname: Kiemer fullname: Kiemer, Lars organization: Center for Biological Sequence Analysis, BioCentrum-DTU, Technical University of Denmark, Building 208, DK-2800 Lyngby, Denmark – sequence: 3 givenname: Søren surname: Brunak fullname: Brunak, Søren organization: Center for Biological Sequence Analysis, BioCentrum-DTU, Technical University of Denmark, Building 208, DK-2800 Lyngby, Denmark |
BackLink | https://www.ncbi.nlm.nih.gov/pubmed/16762979$$D View this record in MEDLINE/PubMed |
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Cites_doi | 10.1002/1097-0134(20001001)41:1<17::AID-PROT40>3.0.CO;2-F 10.1016/S1074-5521(01)00036-9 10.1016/S0531-5565(00)00143-1 10.1038/323533a0 10.1042/bj2900503 10.2337/diabetes.53.2.463 10.1093/glycob/cwh151 |
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Snippet | Glycation is a nonenzymatic process in which proteins react with reducing sugar molecules and thereby impair the function and change the characteristics of the... |
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SubjectTerms | 3D structure advanced glycation end product AGE alkaline phosphatase ALP Animals Databases, Protein Gene Ontology category glycation Humans Internet lysine machine learning prediction Neural Networks (Computer) nonenzymatic glycosylation post-translational modification Protein Modification, Translational - genetics Proteins - genetics Proteome - genetics PTM receiver operating characteristic ROC Sequence Analysis, Protein - methods Software three-dimensional structure |
Title | Analysis and prediction of mammalian protein glycation |
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