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Re: [ccp4bb] Different chains in the dimer
 

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CCP4bb <-- 2008 <-- February 2008 <-- 07 February 2008
Previous message:
Subject: Re: an over refined structure
From: Dirk Kostrewa kostrewa {- at -} LMB {- dot -} UNI-MUENCHEN {- dot -} DE
Date: 2008-02-07 		Next message:
Subject: NCS-related: Parameter for map/structure quality?
From: Jacob Keller j-keller2 {- at -} MD {- dot -} NORTHWESTERN {- dot -} EDU
Date: 2008-02-07


Subject: Re: Different chains in the dimer
From: Chavas Leo ccp4hnaalas {- at -} GMAIL {- dot -} COM
Date: 2008-02-07
Dear Yang,

> I have a protein which has the function unit as a dimer. I got two
> structures of it. One is the native structure, one is the mutant
> structure. Both structures are dimer in ASU. In the native
> structure the two chain look the same, but in mutant structure one
> chain still keep the same structure as the native one, and another
> chain is different. We expect to see the difference, but we wonder
> why one chain is different and another one is the same? Is this
> because of crystallographic packing?

Are both space groups between both structures the same? What about
the cell dimensions? You might want to check the crystal contacts,
the neighboring molecules in both structures. You might have some
differences in the region where you can see some variations. Is it a
point mutation, or is it a deleted mutant? What about the temperature
factors of the all proteins and of the region where you found some
differences? How did you solve the structure of the mutant? Molecular
replacement using the coordinates of the native structure? Did you
try to refine without the variable region to check if the
conformation (which ever) is true? Please give more informations.

HTH anyway.

Kind regards.

Leo
------------------------------------------------------------
Chavas Leonard, Ph.D.
Research Associate
------------------------------------------------------------
Faculty of Life Sciences
The University of Manchester
The Michael Smith Building
Oxford Road
Manchester Lancashire
M13 9PT
------------------------------------------------------------
Tel: +44(0)161-275-1586
e-mail: Leonard.Chavas@manchester.ac.uk



CCP4bb navigation

CCP4bb <-- 2008 <-- February 2008 <-- 07 February 2008
Previous message:
Subject: Re: an over refined structure
From: Dirk Kostrewa kostrewa {- at -} LMB {- dot -} UNI-MUENCHEN {- dot -} DE
Date: 2008-02-07 		Next message:
Subject: NCS-related: Parameter for map/structure quality?
From: Jacob Keller j-keller2 {- at -} MD {- dot -} NORTHWESTERN {- dot -} EDU
Date: 2008-02-07


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