Post-Translational Modifications
Databases
The RESID Database of Protein Modifications is a comprehensive collection of annotations and structures for protein modifications including amino-terminal, carboxyl-terminal and peptide chain cross-link post-translational modifications.
http://www.ebi.ac.uk/RESID/
O-GLYCBASE is a revised database of O- and C-glycosylated proteins.
http://www.cbs.dtu.dk/databases/OGLYCBASE/
N-Terminal Modifications
TermiNator predicts N-terminal methionine excision, N-terminal acetylation, N-terminal myristoylation and S-palmitoylation of either prokaryotic or eukaryotic proteins originating from organellar or nuclear genomes .
http://www.isv.cnrs-gif.fr/terminator2/index.html
Acetylation
NetAcet 1.0 server predicts substrates of N-acetyltransferase A (NatA).
http://www.cbs.dtu.dk/services/NetAcet/
Lysine glycation
Glycation of epsilon amino groups of lysines in mammalian proteins
http://www.cbs.dtu.dk/services/NetGlycate/
Mannosylation
Predictions of C-mannosylation sites in mammalian proteins.
http://www.cbs.dtu.dk/services/NetCGlyc/
Methylation
MeMo is a protein methylation prediction server based on SVM (support vector machine). Limited by available training data on Arginine and Lysine sites.
http://www.bioinfo.tsinghua.edu.cn/~tigerchen/memo.html
Myristoylation
Myristoylator predicts N-terminal myristoylation of proteins by neural networks. Only N-terminal glycines are myristoylated (leading methionines are cleaved prior to myristoylation).
http://www.expasy.org/tools/myristoylator/
N-terminal N-Myristoylation of Proteins
http://mendel.imp.ac.at/myristate/SUPLpredictor.htm
Plant-Specific Myristoylation Predictor
http://plantsp.genomics.purdue.edu/plantsp/html/myrist.html
N-glycosylation
Predicts N-Glycosylation sites in human proteins using artificial neural networks that examine the sequence context of Asn-Xaa-Ser/Thr sequons.
http://www.cbs.dtu.dk/services/NetNGlyc/
O-glycosylation
Predictions of mucin type GalNAc O-glycosylation sites in mammalian proteins.
http://www.cbs.dtu.dk/services/NetOGlyc/
OGPET is an algorithm to predict potential O-glycosylation sites in proteins.
http://ogpet.utep.edu/OGPET/
Predictions for GlcNAc O-glycosylation sites in Dictyostelium discoideum
http://www.cbs.dtu.dk/services/DictyOGlyc/
O-beta-GlcNAc attachment sites in eukaryotic protein sequences. The YinOYang WWW server produces neural network predictions for O-ß-GlcNAc attachment sites in eukaryotic protein sequences. This server can also use NetPhos, to mark possible phosphorylated sites and hence identify "Yin-Yang" sites.
http://www.cbs.dtu.dk/services/YinOYang/
O-GLYCBASE is a revised database of O- and C-glycosylated proteins. The criteria for inclusion are at least one experimentally verified O- or C-glycosylation site.
http://www.cbs.dtu.dk/databases/OGLYCBASE/
S-palmitoylation
Phosphorylation
The NetPhos 2.0 server produces neural network predictions for serine, threonine and tyrosine phosphorylation sites in eukaryotic proteins.
http://www.cbs.dtu.dk/services/NetPhos/
The NetPhosK 1.0 server produces neural network predictions of kinase specific eukaryotic protein phosphoylation sites. Currently NetPhosK covers the following kinases: PKA, PKC, PKG, CKII, Cdc2, CaM-II, ATM, DNA PK, Cdk5, p38 MAPK, GSK3, CKI, PKB, RSK, INSR, EGFR and Src.
http://www.cbs.dtu.dk/services/NetPhosK/
NetPhosYeast 1.0 server predicts serine and threonine phosphorylation sites in yeast proteins.
http://www.cbs.dtu.dk/services/NetPhosYeast/
Scan protein for predicted phosphorylation sites for PKC
http://156.40.231.198/ProteinScan/ScanProteinForPKCSitesPage.aspx
PhosphoMotif Finder contains known kinase/phosphatase substrate as well as binding motifs that are curated from the published literature. It reports the PRESENCE of any literature-derived motif in the query sequence.
http://www.hprd.org/PhosphoMotif_finder
Prediction of S/T residues which are phosphorylated by protein kinase A (PKA)
http://mendel.imp.ac.at/sat/pkaPS/
Phospho.ELM is a database of experimentally verified phosphorylation sites in eukaryotic proteins.
http://phospho.elm.eu.org/
Phospho3D is a database of three-dimensional structures of phosphorylation sites which stores information retrieved from the phospho.ELM database and which is enriched with structural information and annotations at the residue level.
http://cbm.bio.uniroma2.it/phospho3d/
The Phosphorylation Site Database provides ready access to information from the primary scientific literature concerning proteins in prokaryotic organisms (i.e. members of the domains Archaea and Bacteria) that undergo covalent phosphorylation on the hydroxyl side chains of serine, threonine, and/or tyrosine residues.
http://vigen.biochem.vt.edu/xpd/xpd.htm
PhosphoSite to provide an accurate and comprehensive source of information about mammalian protein phosphorylation sites.
http://www.phosphosite.org
PredPhospho 2 predicts phosphorylation sites of protein sequences and their kinases.
http://www.nih.go.kr/phosphovariant/html/seq_input_predphospho2.htm
Predikin is a system to predict the substrates of protein kinases.
http://predikin.biosci.uq.edu.au/pkr/
Prenylation
Prenylation Prediction Suite: Protein CaaX Farnesylation, CaaX Geranylgeranylation and Rab Geranylgeranylation
http://mendel.imp.ac.at/sat/PrePS/index.html
Sumoylation
The SUMOplot™ Analysis Program predicts and scores sumoylation sites in your protein. The presence of this post-translational modification may help explain larger MWs than expected on SDS gels due to attachment of SUMO protein (11kDa) at multiple positions in your protein.
http://www.abgent.com.cn/doc/sumoplot/login.asp
Tyrosine sulfation
The Sulfinator predicts tyrosine sulfation sites in protein sequences
http://www.expasy.org/tools/sulfinator/
SulfoSite is to computationally predict sulfation sites within given protein sequences. A representative set of 162 protein tyrosine sufation sites from the Swiss-Port were used to analyze characteristics and to train and test in SulfoSite. Support Vector Machine (SVM) is applied for learning to each group of sequences and accessible surface area (ASA) value surrounding to the sulfation residues.
http://sulfosite.mbc.nctu.edu.tw/