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CVS log for pkgsrc/biology/pdbalign/PLIST

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Request diff between arbitrary revisions


Default branch: TNF, MAIN
Current tag: pkgsrc-2010Q1-base


Revision 1.1.1.1 / (download) - annotate - [select for diffs] (vendor branch), Fri Sep 26 03:15:28 2003 UTC (17 years, 2 months ago) by jschauma
Branch: TNF, MAIN
CVS Tags: pkgsrc-base, pkgsrc-2020Q3-base, pkgsrc-2020Q3, pkgsrc-2020Q2-base, pkgsrc-2020Q2, pkgsrc-2020Q1-base, pkgsrc-2020Q1, pkgsrc-2019Q4-base, pkgsrc-2019Q4, pkgsrc-2019Q3-base, pkgsrc-2019Q3, pkgsrc-2019Q2-base, pkgsrc-2019Q2, pkgsrc-2019Q1-base, pkgsrc-2019Q1, pkgsrc-2018Q4-base, pkgsrc-2018Q4, pkgsrc-2018Q3-base, pkgsrc-2018Q3, pkgsrc-2018Q2-base, pkgsrc-2018Q2, pkgsrc-2018Q1-base, pkgsrc-2018Q1, pkgsrc-2017Q4-base, pkgsrc-2017Q4, pkgsrc-2017Q3-base, pkgsrc-2017Q3, pkgsrc-2017Q2-base, pkgsrc-2017Q2, pkgsrc-2017Q1-base, pkgsrc-2017Q1, pkgsrc-2016Q4-base, pkgsrc-2016Q4, pkgsrc-2016Q3-base, pkgsrc-2016Q3, pkgsrc-2016Q2-base, pkgsrc-2016Q2, pkgsrc-2016Q1-base, pkgsrc-2016Q1, pkgsrc-2015Q4-base, pkgsrc-2015Q4, pkgsrc-2015Q3-base, pkgsrc-2015Q3, pkgsrc-2015Q2-base, pkgsrc-2015Q2, pkgsrc-2015Q1-base, pkgsrc-2015Q1, pkgsrc-2014Q4-base, pkgsrc-2014Q4, pkgsrc-2014Q3-base, pkgsrc-2014Q3, pkgsrc-2014Q2-base, pkgsrc-2014Q2, pkgsrc-2014Q1-base, pkgsrc-2014Q1, pkgsrc-2013Q4-base, pkgsrc-2013Q4, pkgsrc-2013Q3-base, pkgsrc-2013Q3, pkgsrc-2013Q2-base, pkgsrc-2013Q2, pkgsrc-2013Q1-base, pkgsrc-2013Q1, pkgsrc-2012Q4-base, pkgsrc-2012Q4, pkgsrc-2012Q3-base, pkgsrc-2012Q3, pkgsrc-2012Q2-base, pkgsrc-2012Q2, pkgsrc-2012Q1-base, pkgsrc-2012Q1, pkgsrc-2011Q4-base, pkgsrc-2011Q4, pkgsrc-2011Q3-base, pkgsrc-2011Q3, pkgsrc-2011Q2-base, pkgsrc-2011Q2, pkgsrc-2011Q1-base, pkgsrc-2011Q1, pkgsrc-2010Q4-base, pkgsrc-2010Q4, pkgsrc-2010Q3-base, pkgsrc-2010Q3, pkgsrc-2010Q2-base, pkgsrc-2010Q2, pkgsrc-2010Q1-base, pkgsrc-2010Q1, pkgsrc-2009Q4-base, pkgsrc-2009Q4, pkgsrc-2009Q3-base, pkgsrc-2009Q3, pkgsrc-2009Q2-base, pkgsrc-2009Q2, pkgsrc-2009Q1-base, pkgsrc-2009Q1, pkgsrc-2008Q4-base, pkgsrc-2008Q4, pkgsrc-2008Q3-base, pkgsrc-2008Q3, pkgsrc-2008Q2-base, pkgsrc-2008Q2, pkgsrc-2008Q1-base, pkgsrc-2008Q1, pkgsrc-2007Q4-base, pkgsrc-2007Q4, pkgsrc-2007Q3-base, pkgsrc-2007Q3, pkgsrc-2007Q2-base, pkgsrc-2007Q2, pkgsrc-2007Q1-base, pkgsrc-2007Q1, pkgsrc-2006Q4-base, pkgsrc-2006Q4, pkgsrc-2006Q3-base, pkgsrc-2006Q3, pkgsrc-2006Q2-base, pkgsrc-2006Q2, pkgsrc-2006Q1-base, pkgsrc-2006Q1, pkgsrc-2005Q4-base, pkgsrc-2005Q4, pkgsrc-2005Q3-base, pkgsrc-2005Q3, pkgsrc-2005Q2-base, pkgsrc-2005Q2, pkgsrc-2005Q1-base, pkgsrc-2005Q1, pkgsrc-2004Q4-base, pkgsrc-2004Q4, pkgsrc-2004Q3-base, pkgsrc-2004Q3, pkgsrc-2004Q2-base, pkgsrc-2004Q2, pkgsrc-2004Q1-base, pkgsrc-2004Q1, pkgsrc-2003Q4-base, pkgsrc-2003Q4, cwrapper, cube-native-xorg-base, cube-native-xorg, HEAD
Changes since 1.1: +0 -0 lines
Diff to previous 1.1 (colored)

Rats.  Re-import ``align'' as ``pdbalign'', as that's the package's name.

Given a GCG multiple sequence alignment file (a GCG MSF file), which a 
includes a sequence of known structure, the program pdbalign maps the 
sequence variability onto the known structure. The central premise is 
of course, that for a closely related family of proteins (sequence ID 
> 40%) the 3-D structures will not be significantly different.pdbdist 
calculates the distance from each atom in the pdb file to each atom in 
the ligand and records the minimum in the temperature field for that 
atom record.distalign reads the output from pdbdist and also the 
original GCG MSF file and produces an MSF file annotated with a 
measure of sequence variability and the distance of the residue at 
that position (of the sequence of known structure) from the ligand. 

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