PDB entry 3B5D is a low resolution (3.8 Å) structure that contains only C alpha
coordinates (chain trace, no side chains) in the original pdb file. There are
servers that will generate full backbone and side chain coordinates, e.g.
SABBAC (http://bioserv.rpbs.univ-paris-diderot.fr/services/SABBAC/), however,
be aware that low resolution structures do not get more precise by modelling in
parts that were not resolved in the experimental structure .
Annemarie Honegger
Message: 4
Date: Tue, 25 Oct 2016 21:34:01 +0000
From: Mohsen Chitsaz <mohsen.chit...@flinders.edu.au>
Subject: [PyMOL] difficulty opening EmrE protein (pdb: 3B5D) in Pymol
To: "pymol-users@lists.sourceforge.net"
<pymol-users@lists.sourceforge.net>
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<sg2pr03mb15688f28895fd8bf7a322112d5...@sg2pr03mb1568.apcprd03.prod.outlook.com>
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Hi everyone,
Can someone please assist me opening this pdb file? I am trying to open EmrE
protein (pdb: 3B5D) in Pymol a and show it as cartoon representation, but it
opens up as many little cross signs seem to be corresponding to CA atoms. When
I try to preset it pretty or any other preset options, it disappears. The
command "show cartoon" is not doing anything on it.
Cheers
Mohsen
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