User:Wayne Decatur/Generate Unfolded Structures: Difference between revisions
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===To enable yourself to 'drag' a chain in a structure however you want:=== | ===To enable yourself to 'drag' a chain in a structure however you want:=== | ||
* Load the structure into Pymol with all the consoles open. | * Load the structure into Pymol with all the consoles open. | ||
* Toggle in the bottom right corner the text next to 'Selecting' until 'Residues' comes up. | * Toggle in the bottom right corner the text next to 'Selecting' until 'Residues' comes up. ('Selecting' currently shows as 'Picking' in Mac Pymol1.3r1.) | ||
* put the mouse into 3-button editing mode either using 'Mouse' menu in upper console or toggle it by clicking text next to 'Mouse mode'. | * put the mouse into 3-button editing mode either using 'Mouse' menu in upper console or toggle it by clicking text next to 'Mouse mode'. (On Max currently doing this causes the 'Picking' setting to look like it changes to atoms but holding down control key on the Mac still drags chain around elastic and over time it settles to a form where bonds still constrained to proper length. ) | ||
* Click on Auto-Sculpting in the Sculpting menu that is under the Build menu. | * Click on Auto-Sculpting in the Sculpting menu that is under the Build menu. | ||
* Use control-left-click-and-drag to click on the chain of interest and drag to move the chain where you want it to go and it will move towards your mouse like it is trying to catch up but is in viscous solution. | * Use control-left-click-and-drag to click on the chain of interest and drag to move the chain where you want it to go and it will move towards your mouse like it is trying to catch up but is in viscous solution. | ||
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*[http://www.mail-archive.com/pymol-users@lists.sourceforge.net/msg01890.html Posting about using Sculpting in Pymol to manipulate structures] | *[http://www.mail-archive.com/pymol-users@lists.sourceforge.net/msg01890.html Posting about using Sculpting in Pymol to manipulate structures] | ||
*[http://www.rubor.de/bioinf/tips_advanced.html Has information on molecular sculpting with a summary of what it is meant to be] | *[http://www.rubor.de/bioinf/tips_advanced.html Has information on molecular sculpting with a summary of what it is meant to be] | ||
*[http://www-cryst.bioc.cam.ac.uk/members/zbyszek/figures_pymol Pymol tips list with some help about moving molecules and parts of structures around] | |||
* [http://pymol.sourceforge.net/newman/user/S0260cartoons.html Pymol Users manual page on secondary structure] | * [http://pymol.sourceforge.net/newman/user/S0260cartoons.html Pymol Users manual page on secondary structure] | ||
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