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 <c...@ysbl.york.ac.uk> 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
