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BCSDB/Glycoscience

http://www.glyco.ac.ru/bcsdb/start.shtml

Description :
Bacterial Carbohydrate Structure DataBase is aimed at provision of structural, bibliographic and related information on bacterial carbohydrate structures. The source of data are Carbbank database (University of Georgia, Athens; structures published before 1995, approx. 4000 records) and manual data posting (structures published after 1995, approx. 3000 records).

CCSD - Complex Carbohydrate Structure Database (CarbBank)

http://bssv01.lancs.ac.uk/gig/pages/gag/carbbank.htm

Description :
Complex carbohydrate structure database

References :
1. Doubet S, Albersheim P. CarbBank. Glycobiology. 1992, 2(6):505.
2. Doubet S, Bock K, Smith D, Darvill A, Albersheim P. The Complex Carbohydrate Structure Database. Trends Biochem Sci. 1989, 14(12):475-477

CSS - Carbohydrate Structure Suite

http://www.dkfz.de/spec/css/

Description :
Carbohydrate 3D structures derived from the PDB

Glycan

http://glycan.genome.ad.jp/

Description :
Carbohydrate database, part of the KEGG system

GlycoMapsDB

http://www.glycosciences.de/modeling/glycomapsdb/

Description :
GlycoMaps DB is a data base system for the management of conformational maps and profiles, The system allows conformational maps to be archived in a standard format, and it will provide search and comparison facilities. An interface to structures from Sweet-DB is implemented. We also offer scientists the possibility of adding their own publicized structures to the database via a web interface.

GlycoSuiteDB

http://www.glycosuite.com/

Description :
GlycoSuiteDB release 5, January 2003, contains more than 7800 annotated entries of glycan structures derived from glycoproteins, or free oligosaccharides isolated from biologically important fluids such as milk, saliva and urine. For each structure information is available concerning the glycan type, linkage and anomeric configuration, mass and composition. Detailed information is provided on native and recombinant sources, including species, tissue and/or cell type, cell line, strain, blood group and disease state. There are over 1000 different biological sources represented in GlycoSuiteDB, from over 200 different tissue or cell types. Where known, the proteins to which the glycan structures are attached are described, and cross- references to SWISS-PROT are given if applicable. The database annotations include literature references which are linked to PubMed. Detailed information on the methods used to determine each glycan structure are provided to help the user assess the quality of the structural assignment. The web site (http://www.glycosuite.com) allows the user to search the database using a combination of 2-D glycan structure, composition, glycan linkage type, reducing-terminal sugar residue, glycan mass (monoisotopic or average), species, biological system, tissue or cell type, disease state, protein name, SWISS-PROT/TrEMBL accession number, or reference information. Results can be sorted by glycan mass, protein name, tissue or cell type, disease state or taxonomy. The emphasis of this database is to be consistent. This will enable reliable mining of the information for future applications of glycobiology.

Recent develoments :
An exciting new feature has been added to GlycoSuiteDB. We have now enabled searching by 2-D glycan structure. The user may construct a 2-D structure, or partial structure, via a simple point and click interface. Using a novel search method, this user-defined structure is matched with any part of a glycan structure in GlycoSuiteDB. This new search facility enables the user to rapidly and correctly identify glycan structures containing significant branching and specific epitopes that may be of biological importance. This 2-D glycan structure query may also be combined with any of the existing query types in an advanced query.

Aknowledgement :
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References :
1. Cooper, C.A., Harrison, M.J., Wilkins, M.R., and Packer, N.H. (2001). GlycoSuiteDB: a new curated relational database of glycoprotein glycan structures and their biological sources. Nucleic Acids Res. 29; 332-335.
2. Cooper, C.A., Harrison, M.J., Webster, J.M., Wilkins, M.R., and Packer, N.H. (2002). Data standardisation in GlycoSuiteDB. Pac. Symp. Biocomputing 2002; 297-309.

Monosaccharide Browser

http://www.terravivida.com/vivida/monosaccharide/

Description :
Space filling Fischer projections of monosaccharides

SWEET-DB

http://www.dkfz-heidelberg.de/spec2/sweetdb/

Description :
Complex carbohydrates are known as mediators of complex cellular events. Concerning their structural diversity, their potential of information content is several orders of magnitude higher in a short sequence than any other biological macromolecule. SWEET-DB (http://www.dkfz.de/spec2/sweetdb/) is an attempt to use modern Web techniques to annotate and/or cross-reference carbohydrate-related data collections which allow glycoscientists to find important data for compounds of interest in a compact and well-structured representation. Currently, reference data taken from three data sources can be retrieved for a given carbohydrate (sub)structure. The sources are CarbBank structures and literature references (linked to NCBI PubMed service), NMR data taken from SugaBase and 3D co-ordinates generated with SWEET-II. The main purpose of SWEET-DB is to enable an easy access to all data stored for one carbohydrate structure entering a complete sequence or parts thereof. Access to SWEET-DB contents is provided with the help of separate input spreadsheets for (sub)structures, bibliographic data, general structural data like molecular weight, NMR-spectra and biological data. An elaborated online tutorial is available at http://www.dkfz.de/spec2/sweetdb/nar/.

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