From 0b2646f8fc65385db30c6c8f93a8b22907197af9 Mon Sep 17 00:00:00 2001 From: jschauma Date: Fri, 26 Sep 2003 03:15:28 +0000 Subject: 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. --- biology/pdbalign/Makefile | 19 +++++++++++++++++++ 1 file changed, 19 insertions(+) create mode 100644 biology/pdbalign/Makefile (limited to 'biology/pdbalign/Makefile') diff --git a/biology/pdbalign/Makefile b/biology/pdbalign/Makefile new file mode 100644 index 00000000000..0cba27571cd --- /dev/null +++ b/biology/pdbalign/Makefile @@ -0,0 +1,19 @@ +# $NetBSD: Makefile,v 1.1.1.1 2003/09/26 03:15:28 jschauma Exp $ +# + +DISTNAME= pdbalign +PKGNAME= pdbalign-20030812 +WRKSRC= ${WRKDIR} +CATEGORIES= biology +MASTER_SITES= ftp://ftp.ebi.ac.uk/pub/software/unix/pdbalign/ + +MAINTAINER= hdp@cs.nmsu.edu +HOMEPAGE= #empty +COMMENT= Prediction of Protein Secondary Structure and Active Sites + +do-install: + ${INSTALL_PROGRAM} ${WRKSRC}/pdbalign ${PREFIX}/bin + ${INSTALL_PROGRAM} ${WRKSRC}/distalign ${PREFIX}/bin + ${INSTALL_PROGRAM} ${WRKSRC}/pdbdist ${PREFIX}/bin + +.include "../../mk/bsd.pkg.mk" -- cgit v1.2.3