CE align

linux 下安裝   http://cl.sdsc.edu/ce/ce_align.html

Mac 下安裝  可用 port

因要讀取 scratch file 設定 path 給 ce

>> ce - 1a0j.pdb A  1ixe.pdb A /Users/kevet/scratch

Structure Alignment Calculator, version 1.02, last modified: Mar 13, 2003.

CE Algorithm, version 1.00, 1998.

Chain 1: 1a0j.pdb:A (Size=223)
Chain 2: 1ixe.pdb:A (Size=377)

Alignment length = 57 Rmsd = 5.93A Z-Score = 1.2 Gaps = 52(91.2%) CPU = 3s Sequence identities = 7.0%

Chain 1:  124 LSGSSSNYPD--TLR--------CL--DLPILSSSSCNSAYPGQITSNMFCAGFMEGGKD----------
Chain 2:  229 MIQEIGTPERAREWVREKLAKKERIMGMGHRVYKAFDPRAGV-----------------LEKLARLVAEK

Chain 1:  172 --------SCQGDSG--GPVVCNGQLQGVVSWGYGCAQR
Chain 2:  282 HGHSKEYQILKIVEEEAGKVLN---PRGIYPNVDFYSGV

     X2 = (-0.962516)*X1 + ( 0.270705)*Y1 + (-0.016798)*Z1 + (   14.622005)
     Y2 = (-0.195940)*X1 + (-0.651186)*Y1 + ( 0.733188)*Z1 + (   50.781464)
     Z2 = ( 0.187539)*X1 + ( 0.708996)*Y1 + ( 0.679819)*Z1 + (   89.564117)