Re: [ccp4bb] How to make a structure-based multiple sequence alignment on DALI server?

- Protein crystallography

Main steps:

- Protein purification
- Crystallisation

Special:

- Programs for crystallography
- X-ray detectors

Basic tutorials:

   - Chemistry
   - Protein
   - Peptide
   - Amino Acids

Xtal community:

- CCP4BB

CCP4bb navigation

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

Previous message:
Subject: Re: How to make a structure-based multiple sequence alignment on DALI server?
From: David Goldstone david {- dot -} goldstone {- at -} NIMR {- dot -} MRC {- dot -} AC {- dot -} UK
Date: 2007-12-05

Next message:
Subject: Re: How to make a structure-based multiple sequence alignment on DALI server?
From: Brenda Patterson ucbccka {- at -} UCL {- dot -} AC {- dot -} UK
Date: 2007-12-05

Subject: Re: How to make a structure-based multiple sequence alignment on DALI server?
From: Klaus Futterer k {- dot -} futterer {- at -} BHAM {- dot -} AC {- dot -} UK
Date: 2007-12-05

Christoph Gille's program STRAP generates structure-based multiple
sequence alignment,
which can be combined with sequences for which no structure is
available.

http://www.charite.de/bioinf/strap/

Klaus

---------------------------------------------------------------------

Klaus F¨¹tterer, Ph.D.

School of Biosciences P: +44-(0)-121-414 5895
University of Birmingham F: +44-(0)-121-414 5925
Edgbaston E: k.futterer@bham.ac.uk
Birmingham, B15 2TT, UK W: www.biochemistry.bham.ac.uk/klaus/
---------------------------------------------------------------------

On 5 Dec 2007, at 05:03, david wu wrote:

> Hi all£¬
>
> I want to produce structure-based multiple sequence alignment of my
> protein with five of its homologs on DALI server. However, when I
> tried the "Database Search Form", only one homolog was picked up
> from PDB. If I align my protein with each homolog by the "DaliLite
> Pairwise comparison", how can I combine them together?
>
> Thanks in advance.
>
>
> Best regards,
>
> Sincerely,
>
> Dalei Wu
> Drug Discovery and Design Center
> Shanghai Institute of Materia Medica
> Shanghai Institutes for Biological Sciences
> Chinese Academy of Sciences
> 555 Zu Chongzhi Road, Shanghai, 201203, China
> david.dlwu@gmail.com
> 2007-12-05

CCP4bb navigation

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

Next message:
Subject: Re: How to make a structure-based multiple sequence alignment on DALI server?
From: Brenda Patterson ucbccka {- at -} UCL {- dot -} AC {- dot -} UK
Date: 2007-12-05