Software Tools :: Protein Sequence Analysis
Programs
Protein features
- EMBOSS Programs
- antigenic: Finds antigenic sites in proteins
- helixturnhelix: Report nucleic acid binding motifs
- pepcoil: Predicts coiled coil regions
- pepwheel: Shows protein sequences as helices
- pepnet: Displays proteins as a helical net
- pscan: Scans proteins using PRINTS database
- sigcleave: Reports protein signal cleavage sites
- tmap: Displays membrane spanning regions
Protein properties
- EMBOSS Programs
- checktrans: ORF property statistics
- digest: Protein proteolytic enzyme or reagent cleavage digest
- pepwindow: Displays protein hydropathy
- pepwindowall: Displays protein hydropathy of a set of aligned sequences
- octanol: Plots difference in solubility in octanol and water for a window of residues
- iep: Calculates the isoelectric point of a protein
- pepstats: Protein statistics
- prettyplot: Replacement for EGCG's prettyplot. Also to provide text output from sequence alignments.
- hmoment: Hydrophobic moment calculation.
- charge: Protein charge plot.
Enzyme Kinetics
Pattern searching
- EMBOSS Programs
- fuzzpro: Protein pattern search
- fuzztran: Protein pattern search after translation
- patmatdb: Search a protein sequence database with a motif
- patmatmotifs: Search a motif database with a protein sequence
Secondary Structure
- PREDATOR: Protein secondary structure prediction from a single sequence or a set of sequences (D. Frishman & P. Argos)
- EMBOSS Programs
- pepcoil: Predicts coiled coil regions
- pepwheel: Shows protein sequences as helices
- pepnet: Displays proteins as a helical net
- helixturnhelix: Report nucleic acid binding motifs
- sigcleave: Reports protein signal cleavage sites
- tmap: Displays membrane spanning regions
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