PROTEIN MOTIFS

Protein motif searches

Program name	Description
antigenic	Finds antigenic sites in proteins
bscan	Scans proteins or nucleic acids for conserved motifs using Blocks
digest	Reports on protein proteolytic enzyme or reagent cleavage sites
epestfind	Finds PEST motifs as potential proteolytic cleavage sites
fuzzpro	Search for patterns in protein sequences
fuzztran	Search for patterns in protein sequences (translated)
helixturnhelix	Identify nucleic acid-binding motifs in protein sequences
iprscan	Scans proteins or nucleic acids for conserved motifs using Interpro tools
mkdom	Local multiple alignment of proteins, makes file for XDOM
oddcomp	Identify proteins with specified sequence word composition
patmatdb	Searches protein sequences with a sequence motif
patmatmotifs	Scan a protein sequence with motifs from the PROSITE database
pepcoil	Predicts coiled coil regions in protein sequences
phiblast	Search protein sequence set combining matching of pattern with local alignment o f a query sequence surrounding the match
preg	Regular expression search of protein sequence(s)
ps_scan	Scans proteins for conserved motifs using PROSITE (patterns and profiles)
pscan	Scans proteins for conserved motifs using PRINTS
sigcleave	Reports on signal cleavage sites in a protein sequence
emast	Motif detection
ememe	Motif detection