Re: [ccp4bb] Coot Problem! adding r-nucleotide in DNA

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

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Subject: unit cell flags in mtz files and refmac
From: Jan Abendroth jan {- dot -} abendroth {- at -} GMAIL {- dot -} COM
Date: 2009-02-26

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Subject: Re: Coot Problem! adding r-nucleotide in DNA
From: Yusuf Akhter yusuf {- dot -} akhter {- at -} GMAIL {- dot -} COM
Date: 2009-02-26

Subject: Re: Coot Problem! adding r-nucleotide in DNA
From: Christian Biertuempfel biertumpfelc {- at -} NIDDK {- dot -} NIH {- dot -} GOV
Date: 2009-02-26

Hi Yusuf,
I had a similar problem once when my pdb file did not have the right
format. Check your input coordinate file if your DNA nomenclature is
correct for coot. Maybe, the program does not recognize your molecule as
DNA.

Good luck,
christian

Yusuf Akhter wrote:
> Hi everybody!
> I am using coot version 0.5.
> I am trying to build a DNA sequence in my model.
>
> At certain positions when i add residues and then used "simple mutate"
> to make it according to real sequence, it always add ribonucleotide
> (guanine ribonucleotide, Gr) in place of deoxyribonucleotide (guanine
> deoxynucleotide Gd). When i say "add residue" it adds adenine
> deoxynucleotide but on using "simple mutate" function this problem occurs.
>
> In rest of the positions in sequence everything works fine except at
> this particular position.
>
> have anybody faced similar problem??
>
> Any suggestion will be appreciated.
>
>
> Thanks in advance.
>
>
> Yusuf
>
>
>
>
>
>
>
>
>

--
_______________________________________________________________________

Dr. Christian Biertümpfel
Laboratory of Molecular Biology

NIDDK/National Institutes of Health phone: +1 301 402 4647
9000 Rockville Pike, Bldg. 5, Rm. B1-03 fax: +1 301 496 0201
Bethesda, MD 20892-0580
USA
_______________________________________________________________________

CCP4bb navigation

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

Previous message:
Subject: unit cell flags in mtz files and refmac
From: Jan Abendroth jan {- dot -} abendroth {- at -} GMAIL {- dot -} COM
Date: 2009-02-26

Next message:
Subject: Re: Coot Problem! adding r-nucleotide in DNA
From: Yusuf Akhter yusuf {- dot -} akhter {- at -} GMAIL {- dot -} COM
Date: 2009-02-26