Related Tools & Database


Home -> Links -> Related Tools & Database

List the other available tools and databases related to glycoproteins and glycosyltransferases.
DatabaseDescription
Databases and Tools
National Center for Biotechnology Information Resource for Biomedical and Genomic information
PubMed Literature Resource
NCBI Taxonomy Browser Database of Taxonomic Information
Genbank Nucleotide Sequence database
EMBL Nucleotide Sequence Database
Nucleotide Database of sequences from several sources, including GenBank, RefSeq, TPA and PDB. Genome, gene and transcript sequence data
EMBL-CDS Nucleotide sequence database of coding sequences features
UniProtKB (Protein knowledgebase) Resource of protein sequence and functional information
RCSB PDB Database of Protein structures
IUPHAR DATABASE An annotated and expert reviewed database of Mammalian Glycoprotein hormone receptors
BRENDA Repository of Enzyme Information
STRING Database of known and predicted protein interactions
Lectin Frontier DataBase (LfDB) carbohydrateprotein interaction data
Animal Lectins A genomic resource of animal lectins
BCSDB Structural, bibliographic, taxonomic and related information on bacterial carbohydrate structures (Encoding BCSDB linear code)
CAZy Carbohydrate active enzymes
GlyConnect Gathers sources of information for assisting in the characterization of the molecular components of protein glycosylation. GlyConnect contains curated glycan structure information extracted from the literature and has been built up from GlycoSuiteDB.
JCGGDB Database of Glyco genes, glycoproteins, lectin affinity, MS data, epitopes (Encoding CabosML)
EUROCarbDB European Depository and Portal for carbohydrate (Encoding GlycoCT)
GLYCOSCIENCES.de Collection of tools and databases for glycobiology Encoding (LINUCS)
Glyco3D 3D structures of carbohydrates, glycosyltransferases and lectins
Lectin Database A searchable database of Lectins from Algal, Animal, Bacterial, Fungal, Yeast, Plant, Virus
EPS database Provides access to detailed structural, taxonomic and bibliographic information on bacterial exopolysaccharide structures and properties
GlycoPep DB Database of N linked glycan structures derived from biologically relevant glycopeptides
KEGG Pathway Database Carbohydrate metabolism pathways
UniCarb-DB continuation of the EUROCarbDB, repository for Glycan mass spectrometric data and structural assignment based on fragmentation data
GlycoGene Database (GGDB A database of human genes associated with glycan synthesis such as glycosyltransferase, sugar nucleotide synthases etc
GlycoMapsDB Conformational maps of carbohydrates
GlycoStore A database of retention properties for glycan analysis
GlycoepitopeDB Database of carbohydrate recognition motifs, recognising anti-bodies and glycoproteins/glycolipids carrying the motifs
Elution Coordinate DB Database of 2-aminopyridine labelled glycans
Aglgenes Database containing all available information on archaeal N-glycosylation
ECODAB Escherichia coli O-antigen database
CSDB_GT Carbohydrate Structure Glycosyltransferase Database (glycosyltransferase database on A. thaliana) Glycan fragment
GlycoFish A database of zebrafish N-linked glycoproteins identified using SPEG method coupled with LC/MS
GlycoFly A database of Drosophila N-linked glycoproteins identified using SPEG--MS techniques
MCAW-DB A glycan profile database capturing the ambiguity of glycan recognition patterns.
GlycoPep DB MS glycan analysis tool
GlycoSuiteDB A curated database of glycoprotein glycans.
GlyTouCan International glycan structure repository that assigns globally unique accession numbers to any glycan
Links to web based resources for carbohydrates
RINGS Resource for Informatics of Glycomes at Soka
Glycan A database of PDB-based glycan 3D structures
GlycoDigest A tool that simulates exoglycosidase digestion
GlycoDomain Viewer For Precision mapping of the human O-GalNAc glycoproteome through SimpleCell technology
GlycoPattern A web resource for glycan array mining
GlyMAP An online resource mapping out the variational landscape of glyco-active enzymes
dbCAN A web server and DataBase for automated Carbohydrate-active enzyme Annotation
MS Tools
GlycanMass Calculation of the mass of an oligosaccharide structure from its composition
GlycReSoft Tool for automated recognition of glycans from LC-MS data
MassyTools A High-Throughput Targeted Data Processing Tool for Relative Quantitation and Quality Control Developed for Glycomic and Glycoproteomic MALDI-MS.
GPQuest Tool for identification of intact N- and O-linked glycopeptides in HCD proteomics mass spectrometry data
MAGIC-web Web server aiming to provide mass spectrometry-based automated glycoprotein identification service
NMR Tools
GlyNest Estimation of NMR chemical shifts
CCPN Website of the Collaborative Computing Project for NMR
Glycan structure/conformation Tool
3D SNFG Generates 3D shapes of glycans that match the SNFG format (Symbol Nomenclature for Glycans)
Links to web based Resources for Glycoconjugates
Glycan Library A list of approximately 830 lipid-linked sequence-defined glycan probes derived from diverse natural sources or chemically synthesised
dbCAN2 A meta server for automated carbohydrate-active enzyme annotation
Glycoproteomics MS Tools
pGlyco Identification of intact glycopeptides by integrating HCD-MS/MS, CID-MS/MS and MS3 information.
GRITS Toolbox A glycomics MS data processing tool
SimGlycan Glycan and glycopeptide MS/MS data analysis tool
Tools for prediction and analysis of glycosylation sites/ residues
GPI-SOM Prediction of GPI-anchors
GPP Prediction of O- and N-glycosylation
FindMod Peptides with experimentally measured masses are characterized for possible modifications
GECS N-Glycan Prediction Server is collection of methods for prediction of possible N glycan structures based on the repertoire of glycosyltransferases for N-glycan biosynthesis.
ISOGlyP Isoform specific O-glycosylation prediction
PTM prediction-User Interface List of available PTM prediction servers
GlycoPP GlycoPP: a webserver for prediction of N- and O-glycosites in prokaryotic protein sequences
GlycoEP In silico Platform for Prediction of N-, O- and C-glycosites in Eukaryotic Protein Sequences
GlycoMinestruct A new bioinformatics tool for highly accurate mapping of the human N-linked and O-linked glycoproteomes by incorporating structural features
DAGR Database of Anti-Glycan Reagents -use to search and identify antibodies and reagent lectins to various carbohydrate
NGlycPred Server N-linked Glycosylation Prediction Server Incorporating Structural Information and Patterns
Tools for Glycoprotein Structure/ Conformation
Dynamic Molecules Online molecular dynamics (MD) simulations
GS-align For glycan structure alignment and similarity measurement
SweetUnityMol Software to display 3-D structures of carbohydrates, polysaccharides and glycoconjugates
doGlycans Tools for Preparing Carbohydrate Structures for Atomistic Simulations of Glycoproteins, Glycolipids, and Carbohydrate Polymers for GROMACS
GLYCAM N-glycans modeled onto it using the online portal