Re: [ccp4bb] D-Amino acids to L-Amino acids

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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: D-Amino acids to L-Amino acids
From: Yusuf Akhter yusuf {- dot -} akhter {- at -} EMBL-HAMBURG {- dot -} DE
Date: 2008-08-02

Next message:
Subject: Re: D-Amino acids to L-Amino acids
From: Lijun Liu liulj {- at -} UOXRAY {- dot -} UOREGON {- dot -} EDU
Date: 2008-08-02

Subject: Re: D-Amino acids to L-Amino acids
From: Artem Evdokimov artem {- at -} XTALS {- dot -} ORG
Date: 2008-08-02

The easiest (albeit by far not the simplest!) option is to mutate the
offending amino acid to Gly, then back to what it should be.

Alternatively you could use a script to accomplish the same, but if you only
messed up 1 or 2 residues, the above is easier.

Artem

-----Original Message-----
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Yusuf
Akhter
Sent: Saturday, August 02, 2008 11:39 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] D-Amino acids to L-Amino acids

Hi Everybody,

I am refining structure of a protein at 3 Angstrom. I am doing model
building in
Coot.
After several rounds of refinement using Refmac when I tried to run PROCHECK
on
my partially build model I found that some of the residues are D-amino
acids.

How to change these D-amino acids to L-amino acids??

Is there any option in Coot for that??

Thanks in advance,
yusuf

--
Yusuf Akhter
EMBL Hamburg c/o DESY, Notkestraße 85,
22603 Hamburg, Germany

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CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: D-Amino acids to L-Amino acids
From: Yusuf Akhter yusuf {- dot -} akhter {- at -} EMBL-HAMBURG {- dot -} DE
Date: 2008-08-02

Next message:
Subject: Re: D-Amino acids to L-Amino acids
From: Lijun Liu liulj {- at -} UOXRAY {- dot -} UOREGON {- dot -} EDU
Date: 2008-08-02