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Difference between revisions of "psiblast.pl"
From MMTSB
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== Examples == | == Examples == | ||
+ | <mmtsbToolExample cmd="mutate.pl" set="/apps/mmtsb/bench/mutate.pl-test/test1"></mmtsbToolExample> |
Revision as of 15:05, 30 July 2009
Usage
usage: psiblast.pl [options] [seqFile] options: [-nr] [-pdb] [-db name] [-eshow value] [-ekeep value] [-n alignments] [-i iterations] [-gap initial extension] [-matrix BLOSUM45|BLOSUM50|BLOSUM62|BLOSUM80|PAM250|PAM70|PAM30] [-verbose] [-log file] [-readlog file] [-no value] [-csblast]
Description
Options
- -help
- usage information
Examples
mutate.pl -seq 10:ADEF 1vii.exp.min.pdb
mutates residues 10 through 13 from VFGM in the original structure to ADEF.
ATOM 1 N MET 1 3.075 -9.691 -2.062 0.00 0.000 ATOM 2 CA MET 1 1.835 -9.001 -2.351 0.00 0.000 ATOM 3 C MET 1 0.889 -9.260 -1.188 0.00 0.000 ATOM 4 O MET 1 0.838 -10.371 -0.644 0.00 0.000 ATOM 5 CB MET 1 1.181 -9.487 -3.654 0.00 0.000 ATOM 6 CG MET 1 1.921 -9.123 -4.938 0.00 0.000 ATOM 7 SD MET 1 1.107 -9.774 -6.420 0.00 0.000 ATOM 8 CE MET 1 0.002 -8.437 -6.776 0.00 0.000 ATOM 9 N LEU 2 0.128 -8.242 -0.786 0.00 0.000 ATOM 10 CA LEU 2 -0.806 -8.363 0.321 0.00 0.000 ...