#!/usr/bin/perl use Modern::Perl; use Data::Dumper; my @lines = ( "ATOM 1276 CB ASP B 63 52.957 58.788 67.683 1.00 44.59 C", "ATOM 1280 N GLY B 64 52.075 55.496 66.522 1.00 35.29 N", "ATOM 1281 CA GLY B 64 51.005 54.534 66.322 1.00 32.64 C", "ATOM 1282 C GLY B 64 49.693 55.103 65.854 1.00 30.87 C", "ATOM 1283 O GLY B 64 48.630 54.545 66.092 1.00 27.93 O", "ATOM 1284 N LYS B 65 49.739 56.255 65.189 1.00 31.10 N", "ATOM 1285 CA LYS B 65 48.527 56.912 64.720 1.00 33.91 C", "ATOM 1286 C LYS B 65 48.629 57.147 63.216 1.00 32.04 C", "ATOM 1287 O LYS B 65 49.675 57.571 62.721 1.00 31.87 O", ); my @wants; for my $line (@lines) { push @wants, join ' | ', (split " ", $line)[3,6,7,10,11]; } print Dumper(\@wants);