PipeAlign: a new toolkit for protein family analysis

被引：100

作者：

Plewniak, F ^{[1
]}

Bianchetti, L ^{[1
]}

Brelivet, Y ^{[1
]}

Carles, A ^{[1
]}

Chalmel, F ^{[1
]}

Lecompte, O ^{[1
]}

Mochel, T ^{[1
]}

Moulinier, L ^{[1
]}

Muller, A ^{[1
]}

Muller, J ^{[1
]}

Prigent, V ^{[1
]}

Ripp, R ^{[1
]}

Thierry, JC ^{[1
]}

Thompson, JD ^{[1
]}

Wicker, N ^{[1
]}

Poch, O ^{[1
]}

机构：

[1] Univ Strasbourg 1, CNRS, INSERM,Inst Genet & Biol Mol & Cellulaire, Lab Biol & Genom Struct, F-67404 Illkirch Graffenstaden, France

来源：

NUCLEIC ACIDS RESEARCH | 2003年 / 31卷 / 13期

关键词：

D O I：

10.1093/nar/gkg518

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

PipeAlign is a protein family analysis tool integrating a five step process ranging from the search for sequence homologues in protein and 3D structure databases to the definition of the hierarchical relationships within and between subfamilies. The complete, automatic pipeline takes a single sequence or a set of sequences as input and constructs a high-quality, validated MACS (multiple alignment of complete sequences) in which sequences are clustered into potential functional subgroups. For the more experienced user, the PipeAlign server also provides numerous options to run only a part of the analysis, with the possibility to modify the default parameters of each software module. For example, the user can choose to enter an existing multiple sequence alignment for refinement, validation and subsequent clustering of the sequences. The aim is to provide an interactive workbench for the validation, integration and presentation of a protein family, not only at the sequence level, but also at the structural and functional levels. PipeAlign is available at http://igbmc.u-strasbg.fr/PipeAlign/.

引用

页码：3829 / 3832

页数：4

共 14 条

[1] Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].