Table 2. Current Methods for Function Prediction of Intrinsically Disordered Regions and Proteins.

basis for method	description	method	Web site
linear motifs	annotation of well-characterized linear motifs, which can be mapped onto other protein sequences	ELM125	http://elm.eu.org/
		MiniMotif126	http://mnm.engr.uconn.edu/
	identification of putative uncharacterized motifs in protein sequences	SLiMPrints372	http://bioware.ucd.ie/slimprints.html
		phylo-HMM373	http://www.moseslab.csb.utoronto.ca/phylo_HMM/
		DiliMot374	http://dilimot.russelllab.org/
		SLiMFinder375	http://bioware.ucd.ie/slimfinder.html
PTM sites	resources of experimentally verified PTM sites, mostly phosphorylation	Phospho.ELM268	http://phospho.elm.eu.org/
		PhosphoSite376	http://www.phosphosite.org/
		PHOSIDA377	http://www.phosida.com/
	identification and collection of peptide motifs that direct post-translational modifications	ScanSite380	http://scansite.mit.edu/
		NetPhorest381	http://netphorest.info/
		NetworKIN382	http://networkin.info/
		PhosphoNET383	http://www.phosphonet.ca/
molecular recognition features	collection of verified sequence elements that undergo coupled folding and binding	IDEAL388	http://www.ideal.force.cs.is.nagoya-u.ac.jp/IDEAL/
	prediction of sequences that undergo disorder-to-order transitions	MoRFpred385	http://biomine.ece.ualberta.ca/MoRFpred/
		ANCHOR386	http://anchor.enzim.hu/
intrinsically disordered domains	annotation of disordered protein domains, which can be detected by sequence profiles	Pfam22	http://pfam.sanger.ac.uk/
other	prediction of gene ontology functions using protein sequence features such as intrinsic disorder	FFPred391	http://bioinf.cs.ucl.ac.uk/psipred/
	function annotation of experimentally verified disordered protein regions	DisProt203	http://www.disprot.org/
	predictions of disordered regions combined with information on MoRFs, PTM sites, and domains	D2P2 49	http://d2p2.pro/