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prosextract |
% prosextract Extracting ID, AC & PA lines from the Prosite motif Database. Enter name of prosite directory: data/PROSITE % more prosite.lines ASN_GLYCOSYLATION PS00001 N-glycosylation N-{P}-[ST]-{P} ^N[^P][ST][^P] CAMP_PHOSPHO_SITE PS00004 cAMP- [RK](2)-x-[ST] ^[RK]{2}[^BJOUXZ][ST] PKC_PHOSPHO_SITE PS00005 Protein [ST]-x-[RK] ^[ST][^BJOUXZ][RK] CK2_PHOSPHO_SITE PS00006 Casein [ST]-x(2)-[DE] ^[ST][^BJOUXZ]{2}[DE] etc.......The output files named after the prosite accession numbers can now also be seen in the prosite directory. This files are automatically created after prosextract is run.
Mandatory qualifiers: [-infdat] string Enter name of prosite directory Optional qualifiers: (none) Advanced qualifiers: (none) General qualifiers: -help boolean Report command line options. More information on associated and general qualifiers can be found with -help -verbose |
Mandatory qualifiers | Allowed values | Default | |
---|---|---|---|
[-infdat] (Parameter 1) |
Enter name of prosite directory | Any string is accepted | An empty string is accepted |
Optional qualifiers | Allowed values | Default | |
(none) | |||
Advanced qualifiers | Allowed values | Default | |
(none) |
Program name | Description |
---|---|
aaindexextract | Extract data from AAINDEX |
cutgextract | Extract data from CUTG |
domainer | Reads protein coordinate files and writes domains coordinate files |
funky | Reads clean coordinate files and writes file of protein-heterogen contact data |
groups | Removes redundant hits from a scop families file |
hetparse | Converts raw dictionary of heterogen groups to a file in embl-like format |
nrscope | Converts redundant EMBL-format SCOP file to non-redundant one |
pdbparse | Parses pdb files and writes cleaned-up protein coordinate files |
pdbtosp | Convert raw swissprot:pdb equivalence file to embl-like format |
printsextract | Extract data from PRINTS |
rebaseextract | Extract data from REBASE |
scope | Convert raw scop classification file to embl-like format |
scopnr | Removes redundant domains from a scop classification file |
scopparse | Converts raw scop classification files to a file in embl-like format |
scopseqs | Adds pdb and swissprot sequence records to a scop classification file |
tfextract | Extract data from TRANSFAC |