[IMP-users] a remark concerning chains in a hierarchy returned by read_pdb
To: Help and discussion for users of IMP <>
Subject: [IMP-users] a remark concerning chains in a hierarchy returned by read_pdb
From: Benjamin SCHWARZ <>
Date: Mon, 4 Apr 2011 10:13:21 +0200
Reply-to: Help and discussion for users of IMP <>
Hi list,
Using read_pdb, I expected it to return a hierarchy with distinct chains that could be plainly distinguished solely on their chain ID, this seems not to be the case, and I don't know wether this is a desired behavior or a minor bug.
As an exemple, pdb structure '1pgu' contains :
- two protein chains, A and B
- two Zinc ions (one of them being attached to chain A and the other to chain B)
- and water molecules attached to both chains.
When read through read_pdb, the hierarchy contains 4 children, all 4 eligible for a "conversion" to Chain, each Zinc ion being considered as a chain. I thus have two chains A and two chains B in the hierarchy.
--Ben.S.