Literature DB >> 10592244

The SYSTERS protein sequence cluster set.

A Krause1, J Stoye, M Vingron.   

Abstract

The SYSTERS (short for SYSTEmatic Re-Searching) protein sequence cluster set consists of the classification of all sequences from SWISS-PROT and PIR into disjoint protein family clusters and hierarchically into superfamily and subfamily clusters. The cluster set can be searched with a sequence using the SSMAL search tool or a traditional database search tool like BLAST or FASTA. Additionally a multiple alignment is generated for each cluster and annotated with domain information from the Pfam database of protein domain families. A taxonomic overview of the organisms covered by a cluster is given based on the NCBI taxonomy. The cluster set is available for querying and browsing at http://www.dkfz-heidelberg. de/tbi/services/cluster/systersform

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Year:  2000        PMID： 10592244      PMCID： PMC102384          DOI： 10.1093/nar/28.1.270

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  15 in total

1.  WWW access to the SYSTERS protein sequence cluster set.

Authors:  A Krause; P Nicodème; E Bornberg-Bauer; M Rehmsmeier; M Vingron
Journal:  Bioinformatics       Date:  1999-03       Impact factor: 6.937

2.  Basic local alignment search tool.

Authors:  S F Altschul; W Gish; W Miller; E W Myers; D J Lipman
Journal:  J Mol Biol       Date:  1990-10-05       Impact factor: 5.469

3.  A set-theoretic approach to database searching and clustering.

Authors:  A Krause; M Vingron
Journal:  Bioinformatics       Date:  1998-06       Impact factor: 6.937

4.  MView: a web-compatible database search or multiple alignment viewer.

Authors:  N P Brown; C Leroy; C Sander
Journal:  Bioinformatics       Date:  1998       Impact factor: 6.937

5.  Local alignment statistics.

Authors:  S F Altschul; W Gish
Journal:  Methods Enzymol       Date:  1996       Impact factor: 1.600

6.  The Protein Data Bank: a computer-based archival file for macromolecular structures.

Authors:  F C Bernstein; T F Koetzle; G J Williams; E F Meyer; M D Brice; J R Rodgers; O Kennard; T Shimanouchi; M Tasumi
Journal:  J Mol Biol       Date:  1977-05-25       Impact factor: 5.469

Review 7.  Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.

Authors:  S F Altschul; T L Madden; A A Schäffer; J Zhang; Z Zhang; W Miller; D J Lipman
Journal:  Nucleic Acids Res       Date:  1997-09-01       Impact factor: 16.971

8.  Improved tools for biological sequence comparison.

Authors:  W R Pearson; D J Lipman
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Authors:  N Saitou; M Nei
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Authors:  J D Thompson; D G Higgins; T J Gibson
Journal:  Nucleic Acids Res       Date:  1994-11-11       Impact factor: 16.971
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  23 in total

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Review 2.  Target selection and determination of function in structural genomics.

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Journal:  J Comput Biol       Date:  2006-03       Impact factor: 1.479

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Authors:  Russell L Marsden; Juan A G Ranea; Antonio Sillero; Oliver Redfern; Corin Yeats; Michael Maibaum; David Lee; Sarah Addou; Gabrielle A Reeves; Timothy J Dallman; Christine A Orengo
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6.  PASS2: a semi-automated database of protein alignments organised as structural superfamilies.

Authors:  V Mallika; Anirban Bhaduri; R Sowdhamini
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

7.  Performance comparison of gene family clustering methods with expert curated gene family data set in Arabidopsis thaliana.

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Journal:  Planta       Date:  2008-05-21       Impact factor: 4.116

8.  Optimizing high performance computing workflow for protein functional annotation.

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Journal:  Concurr Comput       Date:  2014-09-10       Impact factor: 1.536

Review 9.  Chitinase from Thermomyces lanuginosus SSBP and its biotechnological applications.

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Journal:  Extremophiles       Date:  2015-11       Impact factor: 2.395

10.  Towards New Drug Targets? Function Prediction of Putative Proteins of Neisseria meningitidis MC58 and Their Virulence Characterization.

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