[Chimera-users] [chimera-users]torsional angle
lynnwuchao at gmail.com
Tue Mar 11 04:29:21 PDT 2008
I have a problem about the measurement of torsional angle.
In the chimera users' guide about the command angle, as follows, it says
that if I select the atoms simultaneously, the order information will get
How can I keep the order information since I need it to calculate the angle
I want exactly?
For example, in the following command I originally want to calculate the
angle :181.a at n,ca,c:182.a at n
but in fact what chimera gave me was may be c-ca-n-n(182).
I want to calculate a lot of diheral information so I can not click one by
one in the gui mode, I wonder is there any way that I can get what I want .
*angle* *atom1 atom2 atom3* [ *atom4* ]
*Angle* reports the bond angle for three
or the dihedral angle for four
The order of specification is important, but atoms need not be
connected. The angle value in degrees is reported in the status
The atoms can be specified collectively using the word *selected*, *sel*, or
*picked* if the current
only the three or four atoms of interest; the order in which the
atoms were selected<http://www.cgl.ucsf.edu/chimera/1.2199/docs/UsersGuide/selection.html>(most
is used. When order information is lacking (for example, the atoms were
selected simultaneously), the angle actually measured may not be the one
There are no automatic updates if the angle changes. A new command must be
issued to measure the changed angle.
National Institute of Biological Sciences, Beijing
Huang Niu's Lab
Address: Beijing ZhongGuanCun Life Science Park, NO.7 Science Park East
Road, NIBS B427
Life Science Honors Program, China Agricultural University
PO.1055, NO.2 YuanMingYuan west road, Beingjing, 100094
E-mail: lynnwuchao at gmail.com
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