S4: structure-based sequence alignments of SCOP superfamilies

S4 is an automatically generated database of multiple structure-based sequence alignments of protein superfamilies in the SCOP database. All structural domains that do not share more than 40% sequence identity as defined by the ASTRAL compendium of protein structures are included. The alignments are...

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Main Authors:	Casbon, James, Saqi, Mansoor A. S.
Format:	Online
Language:	English
Published:	Oxford University Press 2005
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC539997/

id	pubmed-539997
recordtype	oai_dc
spelling	pubmed-5399972005-01-04 S4: structure-based sequence alignments of SCOP superfamilies Casbon, James Saqi, Mansoor A. S. Articles S4 is an automatically generated database of multiple structure-based sequence alignments of protein superfamilies in the SCOP database. All structural domains that do not share more than 40% sequence identity as defined by the ASTRAL compendium of protein structures are included. The alignments are constructed using pairwise structural alignments to generate residue equivalences that are then integrated into multiple alignments using sequence alignment tools. We describe the database and give examples showing how the automatically generated S4 alignments compare favourably to hand-crafted alignments. Available at: http://compbio.mds.qmw.ac.uk/S4.html. Oxford University Press 2005-01-01 2004-12-17 /pmc/articles/PMC539997/ /pubmed/15608181 http://dx.doi.org/10.1093/nar/gki043 Text en Copyright © 2005 Oxford University Press
repository_type	Open Access Journal
institution_category	Foreign Institution
institution	US National Center for Biotechnology Information
building	NCBI PubMed
collection	Online Access
language	English
format	Online
author	Casbon, James Saqi, Mansoor A. S.
spellingShingle	Casbon, James Saqi, Mansoor A. S. S4: structure-based sequence alignments of SCOP superfamilies
author_facet	Casbon, James Saqi, Mansoor A. S.
author_sort	Casbon, James
title	S4: structure-based sequence alignments of SCOP superfamilies
title_short	S4: structure-based sequence alignments of SCOP superfamilies
title_full	S4: structure-based sequence alignments of SCOP superfamilies
title_fullStr	S4: structure-based sequence alignments of SCOP superfamilies
title_full_unstemmed	S4: structure-based sequence alignments of SCOP superfamilies
title_sort	s4: structure-based sequence alignments of scop superfamilies
description	S4 is an automatically generated database of multiple structure-based sequence alignments of protein superfamilies in the SCOP database. All structural domains that do not share more than 40% sequence identity as defined by the ASTRAL compendium of protein structures are included. The alignments are constructed using pairwise structural alignments to generate residue equivalences that are then integrated into multiple alignments using sequence alignment tools. We describe the database and give examples showing how the automatically generated S4 alignments compare favourably to hand-crafted alignments. Available at: http://compbio.mds.qmw.ac.uk/S4.html.
publisher	Oxford University Press
publishDate	2005
url	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC539997/
_version_	1611370249747169280

S4: structure-based sequence alignments of SCOP superfamilies

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