PROTEUS2: a web server for comprehensive protein structure prediction and structure-based annotation.
PROTEUS2: a web server for comprehensive protein structure prediction and structure-based annotation.
复制标题
DOI：
10.1093/nar/gkn255
复制
发表时间：
2008-07-01
影响因子：
14.9
通讯作者：
Wishart DS
中科院分区：
文献类型：
--
作者：
Montgomerie S;Cruz JA;Shrivastava S;Arndt D;Berjanskii M;Wishart DS
PROTEUS2是一个Web服务器，旨在支持全面的蛋白质结构预测和基于结构的注释。PROTEUS2接受单个序列(用于定向研究)或多个序列(用于整个蛋白质组注释)，并预测查询蛋白质的二级结构，如果可能的话，预测三级结构(S)。与大多数其他工具或服务器不同，PROTEUS2将信号肽识别、跨膜螺旋预测、跨膜β链预测、二级结构预测(针对可溶性蛋白质)和同源建模(即3D结构生成)捆绑到一个预测管道中。使用渐进多序列比对、基于结构的映射、隐马尔可夫模型、多组分神经网络和已知二级结构分配的最新数据库的组合，Proteus能够实现对信号肽(Q2=94%)、膜跨螺旋(Q2=87%)和二级结构(Q3得分81.3%)的最高水平的预测准确性。PROTEUS2的S同源建模服务还提供高质量的3D模型，可与Swiss-MODEL和3D JIGSAW生成的模型相媲美(在0.2RMSD范围内)。平均每个查询序列的PROTEUS2预测花费∼3分钟。Proteus2服务器及其许多模块的源代码都可以通过http://wishart.biology.ualberta.ca/proteus2.访问
PROTEUS2 is a web server designed to support comprehensive protein structure prediction and structure-based annotation. PROTEUS2 accepts either single sequences (for directed studies) or multiple sequences (for whole proteome annotation) and predicts the secondary and, if possible, tertiary structure of the query protein(s). Unlike most other tools or servers, PROTEUS2 bundles signal peptide identification, transmembrane helix prediction, transmembrane β-strand prediction, secondary structure prediction (for soluble proteins) and homology modeling (i.e. 3D structure generation) into a single prediction pipeline. Using a combination of progressive multi-sequence alignment, structure-based mapping, hidden Markov models, multi-component neural nets and up-to-date databases of known secondary structure assignments, PROTEUS is able to achieve among the highest reported levels of predictive accuracy for signal peptides (Q2 = 94%), membrane spanning helices (Q2 = 87%) and secondary structure (Q3 score of 81.3%). PROTEUS2's homology modeling services also provide high quality 3D models that compare favorably with those generated by SWISS-MODEL and 3D JigSaw (within 0.2 Å RMSD). The average PROTEUS2 prediction takes ∼3 min per query sequence. The PROTEUS2 server along with source code for many of its modules is accessible a http://wishart.biology.ualberta.ca/proteus2.
登录
查看更多内容
影响因子：
5.8
作者：
Pollastri, G;McLysaght, A
通讯作者：
McLysaght, A
影响因子：
2.9
作者：
Oldfield, CJ;Cheng, Y;Dunker, AK
通讯作者：
Dunker, AK
影响因子：
14.9
作者：
Bagos, PG;Liakopoulos, TD;Hamodrakas, SJ
通讯作者：
Hamodrakas, SJ
影响因子：
3
作者：
Montgomerie, Scott;Sundararaj, Shan;Wishart, David S.
通讯作者：
Wishart, David S.
影响因子：
3
作者：
Pollastri G;Martin AJ;Mooney C;Vullo A
通讯作者：
Vullo A