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  1. or download this
    if ($_=~m/^ATOM\s+\d+\s+\w+\s+\w+\s+\w+\d+\s+(\S+)\s+(\S+)\s+(\S+)/){
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    open (IN, '6U9D.pdb.txt');
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    my $filename = '6U9D.pdb.txt';
open (IN, $filename)
    or die "Couldn't open '$filename': $!";
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    %amino_acid_conversion = (
    ALA=>'A',
...
    ILE=>'I',
    VAL=>'V'
);