mTM-align: a server for fast protein structure database search and multiple protein structure alignment.
Nucleic Acids Res
; 46(W1): W380-W386, 2018 07 02.
Article
em En
| MEDLINE
| ID: mdl-29788129
ABSTRACT
With the rapid increase of the number of protein structures in the Protein Data Bank, it becomes urgent to develop algorithms for efficient protein structure comparisons. In this article, we present the mTM-align server, which consists of two closely related modules one for structure database search and the other for multiple structure alignment. The database search is speeded up based on a heuristic algorithm and a hierarchical organization of the structures in the database. The multiple structure alignment is performed using the recently developed algorithm mTM-align. Benchmark tests demonstrate that our algorithms outperform other peering methods for both modules, in terms of speed and accuracy. One of the unique features for the server is the interplay between database search and multiple structure alignment. The server provides service not only for performing fast database search, but also for making accurate multiple structure alignment with the structures found by the search. For the database search, it takes about 2-5 min for a structure of a medium size (â¼300 residues). For the multiple structure alignment, it takes a few seconds for â¼10 structures of medium sizes. The server is freely available at http//yanglab.nankai.edu.cn/mTM-align/.
Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
Algoritmos
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Software
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Proteínas
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Homologia Estrutural de Proteína
Idioma:
En
Ano de publicação:
2018
Tipo de documento:
Article
País de afiliação:
China