EMBL

This web service is useful for evaluating the location of candidate short regulatory sequences in proteins (linear motifs) which need to be accessible to interact with their ligand domains. The StructureFilter web-service calculates an accessibility score, secondary structure score and total score (as well as various other features) for each match of a regular expression or ELM in the query sequence for which structural information is available.

This service calculates the conservation of ELM matches in a set of homologous sequences.

the web service consists of three methods:

• RunJob
• GetStatus
• GetResult

Reference:

A tree-based conservation scoring method for short linear motifs in multiple alignments of protein sequences.
Claudia Chica, Alberto Labarga, Cathryn M Gould, Rodrigo Lopez and Toby J Gibson.
BMC Bioinformatics. 2008 May 6;9(1):229

GlobPlot performs intrinsic protein disorder, domain and globularity prediction for a query protein sequence.

the web service consists of one method:

• runGlobPlotter

Reference:
GlobPlot: Exploring Protein Sequences for Globularity and Disorder
Rune Linding, Robert B. Russell, Victor Neduva and Toby J. Gibson
(Nucleic Acids Research, 2003, Vol. 31, No. 13 3701-3708)

URL: globplot

The phospho.ELM database contains descriptions of sets of one or more orthologous eukaryotic proteins that are annotated to be phosphorylated.
The orthology grouping allows convenient cross-species comparison.

The web-service provides the following methods to gain access to the various information in the database:

• getBindingDomainList
• getKinaseList
• getSubstrateByIdentifier
• getSubstratesByNameSearch
• getSubstratesByGeneNameSearch
• getInstanceByIdentifier
• getInstancesByBindingDomainText