Bioinformatics and molecular modeling in glycobiology.
The field of glycobiology is concerned with the study of the structure, properties, and biological functions of the family of biomolecules called carbohydrates. Bioinformatics for glycobiology is a particularly challenging field, because carbohydrates exhibit a high structural diversity and their chains are often branched. Significant improvements in experimental analytical methods over recent years have led to a tremendous increase in the amount of carbohydrate structure data generated. Consequently, the availability of databases and tools to store, retrieve and analyze these data in an efficient way is of fundamental importance to progress in glycobiology. In this review, the various graphical representations and sequence formats of carbohydrates are introduced, and an overview of newly developed databases, the latest developments in sequence alignment and data mining, and tools to support experimental glycan analysis are presented. Finally, the field of structural glycoinformatics and molecular modeling of carbohydrates, glycoproteins, and protein-carbohydrate interaction are reviewed.
Frank
Martin
M
Molecular Structure Analysis Core Facility-W160, Deutsches Krebsforschungszentrum (German Cancer Research Centre), 69120 Heidelberg, Germany. m.frank@dkfz.de
Schloissnig
Siegfried
S
D000818:Animals; D050260:Carbohydrate Metabolism; D002241:Carbohydrates / Q000737:chemistry; D019295:Computational Biology; D003198:Computer Simulation; D019992:Databases as Topic; D023281:Genomics; D054794:Glycomics / Q000379:methods*; D006023:Glycoproteins / Q000737:chemistry; D008322:Mammals; D008958:Models, Molecular; D008968:Molecular Conformation; D009005:Monosaccharides / Q000737:chemistry; D011134:Polysaccharides / Q000737:chemistry; D011506:Proteins / Q000378:metabolism
D002241:Carbohydrates; D006023:Glycoproteins; D009005:Monosaccharides; D011134:Polysaccharides; D011506:Proteins