Re: [ccp4bb] SeMET inconsistency

[Kayashree M]

Respected Sir,

Probably that may be the case I will check. Thank you
for the suggestion.

With Regards
Kavya

-----CCP4 bulletin board <CCP4BB@JISCMAIL.AC.UK> wrote: -----

To: CCP4BB@JISCMAIL.AC.UK
From: "VAN RAAIJ , MARK JOHAN"
Sent by: CCP4 bulletin board
Date: 10/22/2011 09:33PM
Subject: Re: [ccp4bb] SeMET inconsistency

Dear Kavya,

I don't think it is likely you have five MSE and one MET. Rather, I would guess the side-chain has some disorder, i.e. one or more alternative conformations. If you don't see density for alternative conformations, the best way to model the disorder might be partial occupancy of the MSE that gives negative difference density peaks.

Mark

Quoting Kayashree M:

Dear users,

I had posted this question already but in a different context.

One of the Se-Met derivatised protein that we have solve is a
homodimer
(with 4 MET in the chains that crystallised) of which one chain has 3
MSE
residues, while the other chain has only 2 MSE.

Are there any such instances in PDB, where two homodimer (or any mer)
wherein each has different percentage of MSE?
Because when we change the only MET to MSE a negative density would
arise. The tools to analyse anomalous peaks is not giving peaks for
the
MSE residues as the data was collected at 1.541Ang wavelength.

Thank you
Kavya

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Mark J van Raaij
Laboratorio M-4
Dpto de Estructura de Macromoléculas
Centro Nacional de Biotecnología - CSIC
c/Darwin 3, Campus Cantoblanco
28049 Madrid
tel. 91 585 4616
email: mjvanra...@cnb.csic.es

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