Protomatch

Protomatch is a bioinfomatic tool that allows to scan protein sequences to find occurences of motifs (see the Protomata web site for more informations).

Here this tool can be used to scan an amino acid sequence of phycobilin lyase or any related protein (in fasta format) in order to check to which protomate of the CyanoLyase database it best matches.

Job title

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Protomaton

Select a protomaton file	Select an already generated protomaton file. File size is limited to 5Mb
Protomaton	Selected protomaton
Protomata	Scanning with all the known lyase signatures

Sequences to scan

Select a database Use your own sequences
Paste your sequences Use a public databank	FASTA format. Length is limited to 5Mb
Or select a file	FASTA format. File size is limited to 5Mb
Score threshold	The results will only contain the sequences with a score higher than this value (scores can be negative).

Scan options

Allow partial model match	Search for sequences matching only a part of the protomaton

Advanced options

Sequence length filter	Scan only sequence with a length higher than and lower than
Exceptions handling	Handle exceptions as gaps