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2007.06.07 -- This application has been archived. Local users, see a CSB staff member for help if you need to run this program in the Core.


An interactive tool for modelling RNA

MANIP allows rapid assembly of separate motifs (each with a specified sequence) into a complex three-dimensional architecture. The already determined modules are present in a database from which they can be extracted with the appropriate sequence.
Their assembly is performed in real time with buttons and dials that command rotation and translation of any chosen fragment with respect to the chosen pivot, or that generate all possible variations of any torsion angle within a specified segment either in the 5' or in the 3' direction.
MANIP automatically recognizes and displays the allowed and nonallowed hydrogen bonds between the residues.
The program is interfaced with a rapid and automatic online refinement tool of partial or full assemblies, NUCLIN-NUCLSQ.

To use MANIP in the CSB core, type the following (on an SGI):

setup manip (or source /srv/local/setup/manip.set)
manip &

Click the right button of the mouse in the Manip window to see the menu.
With "MANIP", you can :
add or change the occupancy,
put the correct values for the atomic factor (KS),
set the temperature factors per group,
renumber the atoms,
extract atoms by type or group,
apply a symmetry operation.

The publication of research using this software should reference:
Massire C, Westhof E: J Mol Graph Model 1998 Aug-Dec;16(4-6):197-205, 255-7

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Last Modified: Thursday, 07-Jun-2007 10:56:48 EDT by S.Kunchaparty