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Re: [ccp4bb] How to align a sequence to a know profile
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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999
Previous message:
Subject: Re: How to align a sequence to a know profile
From: Thomas Juettemann juettemann {- at -} GMAIL {- dot -} COM
Date: 2010-06-01		Next message:
Subject: Re: please recommend a crystallization incubator
From: Nathaniel Clark nathanielclar5 {- at -} GMAIL {- dot -} COM
Date: 2010-06-01


Subject: Re: How to align a sequence to a know profile
From: Eric Larson larsonet {- at -} U {- dot -} WASHINGTON {- dot -} EDU
Date: 2010-06-01

3-d coffee and expresso will align sequences without structures with sequences that do have structures in a structure-based sequence alignment:

http://www.tcoffee.org/Projects_home_page/expresso_home_page.html

perhaps this is along the lines of what Yuan is looking for?

__________________________
Eric Larson, PhD
MSGPP Consortium
Department of Biochemistry
Box 357742
University of Washington
Seattle, WA 98195

On Tue, 1 Jun 2010, Thomas Juettemann wrote:

> Does chainsaw not the opposite? Pruning a coordinate file based on
> non-conserved residues identified in a MSA?
> Yuan has a MSA of known structures and a sequence he wants to add to
> it. I am always keen to learn about alignment programs, it would be
> great to know how to use chainsaw for this problem.
>
>
> On Tue, Jun 1, 2010 at 02:20, Eleanor Dodson wrote:
>> chainsaw does just that
>>
>> eleanor
>>
>> 商元 wrote:
>>>
>>> Hello, everyone,
>>>    I've a protein sequence of known domain. Based on structure alignment,
>>> I've got a alignment of those with known structures. Then how to add my
>>> sequence to the alignment?Any suggestions?
>>>   Regards,
>>> Yuan SHANG
>>>
>>
>

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999
Previous message:
Subject: Re: How to align a sequence to a know profile
From: Thomas Juettemann juettemann {- at -} GMAIL {- dot -} COM
Date: 2010-06-01		Next message:
Subject: Re: please recommend a crystallization incubator
From: Nathaniel Clark nathanielclar5 {- at -} GMAIL {- dot -} COM
Date: 2010-06-01
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