Re: [ccp4bb] to extract protein sequence from a rebuilt pdb file

- Protein crystallography

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

Previous message:
Subject: Re: to extract protein sequence from a rebuilt pdb file
From: "Miller, Mitchell D {- dot -} " mmiller {- at -} SLAC {- dot -} STANFORD {- dot -} EDU
Date: 2008-10-01

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Subject: Re: Putting ligand in the protein structure
From: Anastassis Perrakis a {- dot -} perrakis {- at -} NKI {- dot -} NL
Date: 2008-10-01

Subject: Re: to extract protein sequence from a rebuilt pdb file
From: Jane Bailey jbailey {- dot -} xtal {- at -} GOOGLEMAIL {- dot -} COM
Date: 2008-10-01

Thanks, I have found out that swiss pdb viewer could easily export sequence,
thanks all.

On Wed, Oct 1, 2008 at 5:49 PM, S. Thiyagarajan wrote:

> Hi
> I would take it pdb deposition site (rcsb.org) and feed the pdb into the
> validation server. That gives out the sequence of the input pdb
>
> regards
>
> ========================================================
> == S. Thiyagarajan ==
> == #5344 Scott Hall ==
> == Department of Biochemistry and Molecular Biology ==
> == School of Medicine, Wayne State University ==
> == 540 E. Canfield St. ==
> == Detroit, MI 48201 U.S.A ==
> == Phone: +1-313-577-0618 (lab) ==
> +1-248-412-3758 (Cell) ==
> ========================================================
>
> --- On *Wed, 10/1/08, Jane Bailey * wrote:
>
> From: Jane Bailey
> Subject: [ccp4bb] to extract protein sequence from a rebuilt pdb file
> To: CCP4BB@JISCMAIL.AC.UK
> Date: Wednesday, October 1, 2008, 4:40 AM
>
>
> Hi, all
>
> I am currently rebuilting my structure in coot, and the protein sequence is
> around 98% rebuilt yet. I am looking for a way to extract protein sequence
> from the rebuilt.pdb so that I could see clearly which part need to be
> rebuilt by sequence alignment. Any ideas about this? thanks
>
> Best
> Jane
>
>
>

CCP4bb navigation

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

Previous message:
Subject: Re: to extract protein sequence from a rebuilt pdb file
From: "Miller, Mitchell D {- dot -} " mmiller {- at -} SLAC {- dot -} STANFORD {- dot -} EDU
Date: 2008-10-01

Next message:
Subject: Re: Putting ligand in the protein structure
From: Anastassis Perrakis a {- dot -} perrakis {- at -} NKI {- dot -} NL
Date: 2008-10-01