[PyMOL] [PyMol] Fuse command issues

2012-06-08 Thread Alex Truong
Hi All, I am trying to append four residues (MQFF) to the N-terminus (G) of a protein fragment, and whenever I generate the 4-residue peptide and fuse the appropriate atoms together, it always reads MQFGF instead of MQFFG, like the fragment has somehow invaded the N-terminus instead of latching to

[PyMOL] Combine the "Improved plugin manager" and the Pymol-script-repo

2012-06-08 Thread Troels Emtekær Linnet
Dear PyMOL users. Since 1/5-2012 (revision 3997) pymol has an improved plugin manager due to Thomas Holder's effort. I personally believe that it is a wonderful tool to extend the capabilities of PyMOL, making it easy and fast to acquire new scripts. Since November 2011, a group of pymol users ha

Re: [PyMOL] [PyMol] Fuse command issues

2012-06-08 Thread Thomas Holder
Hi Alex, the sequence view is ordered by identifiers, not by connectivity. There seems to be no mechanism to automatically deal with duplicated residue numbers when fusing objects. I think the only safe way is to make sure that chain and/or residue numbers do not overlap in both objects. Exampl

Re: [PyMOL] how to remap mouse wheel?

2012-06-08 Thread Takanori Nakane
Hi, You can use "button" command. In this case, button wheel, None, MovZ will do the job. Best regards, Takanori Nakane -- Live Security Virtual Conference Exclusive live event will cover all the ways today's security

Re: [PyMOL] Combine the "Improved plugin manager" and the Pymol-script-repo

2012-06-08 Thread Jason Vertrees
Hi Troels, The new plugin manager is indeed fantastic. It's a direct result of the PyMOL Open-Source Fellowship Program, which will soon be accepting applications, and the skill of Thomas Holder. Your contribution via the git-repo was valuable as well. For universities and large commercial deploym

[PyMOL] Map custom function to mouse

2012-06-08 Thread Tsjerk Wassenaar
Beautiful people, I was trying to make an image with a surface, with part of the surface opened to show the inside. I tried to clip the surface by hiding everything within a distance from a pseudoatom, but I ended up editing by hand selecting atoms with the mouse, left click, hide, surface. I was