[Chimera-users] structure matching

Bala subramanian bala.biophysics at gmail.com
Wed Mar 4 08:08:33 PST 2009

Hello all,

1) I have to superimpose two protein structures based on sequence matching
say prot1 and prot2. Precisely matchmaker.
My prot1 is a cryo electron microscopy structure, the structure is not
continuous, it has missing residues and hence its pdb contains 3 Chains.
My prot2 is a crystal structure, having one chain. I need your suggestion in
superimposing these two structure wherever the sequences are matching.

What i tried:
I opened pro1 pdb and changed all chain names as A ( it contains chain
A,B,C). Then i tried to superimpose with prot2, but matchmaker doesn work.

2) when i open molecules one by one, i need all the molecules appear in the
center of the chimera window. How to set this in chimera. After opening the
first pdb, when i open the second one, it is invisible.

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