Hi Shane,
another curious case is the crystal structure of a signal receiver domain of
Desulfovibrio desulfuricans (PDB code: 3cg0, Patskovsky et al., to be
published), as discussed in Sippl (2009) Curr. Opin. Struct. Biol.
Best,
-Markus
Hi ccp4bb,
I'm putting together a talk for some
There is one additional point perhaps worth making: As already noted in the
thread, if you have a NCS homo-oligomer, the different copies in general
have different environment, and proper inspection of the contacts reveals
the details. On multiple occasions during inspections and review I have
Insulin can take very different structures for 20% of the residues in
different conditions, and there are several examples of T3R3
hexamers, with one T and one R in the asymmetric unit. There are
even observations of the transformation occurring within the crystal,
which looked battered but still
Hi Shane,
some crystal forms of trimeric AcrB (a multi-drug resistance secondary
transporter) have 3 (or 6) monomers in the ASU and these are substantially
different, which suggests how the protein functions.
One reference is e.g. Seeger et al. (2006) Structural Asymmetry of AcrB
Trimer
On 27 Jan 2014, at 19:08, Shane Caldwell shane.caldwel...@gmail.com wrote:
Here is another interesting one:
Perez, C., Koshy, C., Yildiz, Ö., Ziegler, C. (2012). Alternating-access
mechanism in conformationally asymmetric trimers of the betaine transporter
BetP. Nature.
best wishes,
Tobias
: Tue, Jan 28, 2014 01:10
Subject: [ccp4bb] Examples of multiple ASU copies with different conformations
To: CCP4BB@JISCMAIL.AC.UK
The structure of kappa opioid receptor fused with T4 lysozyme (4DJH)
contains two copies in the ASU – each copy displays a different orientation
between
of multiple ASU copies with different conformations
Hi ccp4bb,
I'm putting together a talk for some peers that highlights strengths and
weaknesses of structural models for the outsider. For one point, I'd like to
find some examples of proteins that show very different conformations between
different
Dear Shane,
To add a bit of detail to Frank von Delft's suggestion,
perhaps the best example is the structure of the yeast F1-ATPase that has 3
copies in the asu, from David Mueller's lab in Chicago. Two of these are very
similar, but the third is rather different and
Hi there,
another nice kinase example might be IRAK-4. there are several pdbs,
the one I have in mind is 2OIB. The alphaC helix that takes on
different conformations in active and inactive conformations in
kinases ('in' and 'out') is in four different positions in the four
different
If you are including two copies in a single biological complex, then the two
halves of the reverse transcriptase heterodimer have dramatically different
domain organizations (OK, one copy is truncated - losing one whole domain out
of five; PDB codes ad nauseam). Indeed one stretch of sequence
Dear Shane,
the others have already given very good examples of high impact
biology structures; I would still like to add the structure PDB:1J49
(Razeto et al. (2002). JMB 318, 109).
Its a structure of a D-Lactate dehydrogenase, a two-domain enzyme, where
one ASU subunit adopts an open and
Hi Shane,
One example that comes to mind is aquaporin-z. Two protomers were found in the
ASU, one contained the water channel in an open conformation while the other in
a closed conformation. The structural differences are not “large” but the
functional implication is.
Here is the primary
Another interesting example might be a structure of Mad2, protein essential
in the process of chromosome segregation. Protein has 2 different secondary
structure topologies and both of them are part of the AU in 2V64. There are
other X-ray structures where only one of the conformations is captured
Hi ccp4bb,
I'm putting together a talk for some peers that highlights strengths and
weaknesses of structural models for the outsider. For one point, I'd like
to find some examples of proteins that show very different conformations
between different copies in the ASU. One example I know of is
The structure of kappa opioid receptor fused with T4 lysozyme (4DJH)
contains two copies in the ASU – each copy displays a different orientation
between the receptor and lysozyme.
On Mon, Jan 27, 2014 at 10:08 AM, Shane Caldwell shane.caldwel...@gmail.com
wrote:
Hi ccp4bb,
I'm putting
: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Aaron
Thompson
Sent: Monday, January 27, 2014 5:11 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] Examples of multiple ASU copies with different
conformations
The structure of kappa opioid receptor fused with T4 lysozyme (4DJH
F1 ATPase. Got some Nobel glamour too.
Sent from tiny silly touch screen
- Reply message -
From: Aaron Thompson aaron.a.thomp...@gmail.com
Date: Tue, Jan 28, 2014 01:10
Subject: [ccp4bb] Examples of multiple ASU copies with different conformations
To: CCP4BB@JISCMAIL.AC.UK
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