ZHAO Lina skrev 2011-03-16 06.33:
@ legend length 2
@ s0 legend "Hydrogen bonds"
@ s1 legend "Pairs within 0.35 nm"
0 0 0
200 0 0
400 2 1
600 0 3
800 0 2
1000 1 0
:
50000 3 2
Here the situations, what's the $2 and $3 mean, why when $1=1000, $3=0
if the $3 means pairs.
I tried pymol, and on the last frame,
there were 4 hydrogen bonds, between 7 residues. it's different from
here 3 2
Last time I checked there's no hbond tool in pymol (although that may
have changed without me knowing it). I have seen scrpts that does it for
you, but they didn't take angles into account. Hence, different criteria
may explain the discrepancy.
Thanks and sorry for last email without my realization it sent.
lina
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Erik Marklund, PhD student
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596, 75124 Uppsala, Sweden
phone: +46 18 471 4537 fax: +46 18 511 755
er...@xray.bmc.uu.se http://folding.bmc.uu.se/
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