Protein Domains and Motif Prediction

CHOP takes a protein sequence as input, and returns a list of protein sequence fragments with homology to PDB and Pfam domains and to proteins from the SWISS-PROT database. - [Read more CHOP]

Clusters of Orthologous Groups represent ancient conserved protein domains; use COGnitor tool to find COGS in sequence of interest. - [Read more COGs]

Tool for prediction of eukaryotic protein functional sites that reports domain, motif, and sequence pattern information for your input sequence. - [Read more ELM: Eukaryotic Linear Motif resource]

FunShift is a database that stores Pfam subfamily classification for protein domain families and analyses them for functional changes using evolutionary substitution rates and conservation shifts. - [Read more FunShift]

Integrated database of commonly used signature databases (e.g. PROSITE, PRINTS, SMART, Pfam, ProDom); text- and sequence-based searches. - [Read more InterPro]

The MyHits server integrates several tools with a focus on protein annotation and the analysis of protein domains. Guest users have access to tools such as ClustalW and T-Coffee and databases like Swiss-Prot, Prosite and Interpro. Registration allows us - [Read more MyHits]

Predicts mucin type GalNAc O-glycosylation sites in mammalian proteins. - [Read more NetOGlyc Prediction Server]

NRPS-PKS is an tool comprising four integrated databases for the analysis of large multi-enzymatic multi-domain megasynthases. The user can submit a query sequence to search for domains or view the properties of the products. - [Read more NRPS-PKS]

Collection of multiple sequence alignments and hidden Markov models covering many common protein domains. - [Read more Pfam]

Database of experimentally verified phosphorylation sites in eukaryotic proteins. Annotations are done manually and database entries come from and are linked back to scientific literature. Phospho.ELM incorporates the data formerly found in PhosphoBase. - [Read more Phospho.ELM]

PhosphoSite is a curated database of in vivo human and mouse phosphorylation sites. The database contains peptide sequences and locations within domains and motifs for the phosphorylation sites, and links to useful resources and literature references. F - [Read more PhosphoSite]

Database of protein families and domains defined from SwissProt database; consider also checking specific motif databases such as PhosphoBase. - [Read more PROSITE]

Scan your sequence against PROSITE database for functional motifs; consider also checking specific motif databases such as PhosphoBase. - [Read more ScanProsite]

SledgeHMMER is a tool for searching the Pfam database using a parallelized version of the program hmmpfam. The user can perform queries with one or more sequences at a time and then receive the results by e-mail. - [Read more SledgeHMMER]

SMART (Simple Modular Architecture Research Tool) is a web tool for the identification and annotation of protein domains, and provides a platform for the comparative study of complex domain architectures in genes and proteins. - [Read more SMART]