Hello, all.

First let me announce that I am not a PyMOL poweruser, and I have virtually no experience with crystallography and its data files. I have been plugging along using the PyMOLwiki as my knowledge-base for years, but cannot seem to wrap my head around certain issues.

For example, 6pfk (phosphofructokinase) exists as a file that, when fetched, opens as a complete biological unit (a tetramer), with chains A, B, C, and D. However, 4pfk is only one subunit. When I then fetch 4pfk, type=pdb1 in order to obtain the biological unit, I can split_states and delete the original 4pfk. This leaves me with  a biological unit, but one in which each chain is its own object.

Ultimately, I would like to be able to align/superimpose various parts of these two structures. Is there an easy way to do this, given that one is a single object with multiple chains, and the other is four separate objects? Or. Alternatively, is there a way to convert the 4pfk biological unit into a single object, with chains A, B, C, and D?


Dave Bourgaize
Whittier College