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Friday, October 14, 2005

Use distance method to detect 8 residues

Tried on 1bww and 1kcl
pretty strait forward, just check contact of those four strands(including side chain),
mark contacts residues between non-H-bond strands,
pick two residues on each strand which 1) there's a residue between them. 2)from these two residues, you can contact with 3 other strands.
then, you'll have 8 residues.

by this way, we know 8 residues in hbalign_9_19.xls are wrong,
two residues of 1kcl on K strand are not Y and V, should be W and Y.

example process as flow

1bww A
3 4 8 9
38
23@71
25#!72
73*%
74*
75*$
77$
88$@35%!
90#37*@!
94
ANS:23,25,35,37,75,77,88,90:A
1kcl A 582 686
34 35 36 37
3436
591$!634@
593#@%635@
596%636@%
598%638!
640!
650$!604%
652$#%!606!
653%
654%
3735
ANS:591,593,604,606,636,638,650,652:A

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