ConPred_elite: a highly reliable approach to transmembrane topology prediction
ConPred_elite: a highly reliable approach to transmembrane topology prediction
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DOI：
10.1016/j.compbiolchem.2003.11.002
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发表时间：
2004-02-01
影响因子：
3.1
通讯作者：
Shimizu, T
中科院分区：
文献类型：
--
作者：
Xia, JX;Ikeda, M;Shimizu, T
跨膜蛋白(TM)的功能与其TM拓扑结构密切相关，越来越需要大量高可靠的TM拓扑数据。我们提出了一种新的一致性TM拓扑预测方法(ConPred_Elite)，该方法可以在实验表征的TM拓扑数据集上预测整个拓扑，对原核生物的预测精度为0.98，对真核蛋白质的预测精度为0.95。在该数据集上预测的产量为原核生物的30.4%和真核生物蛋白质的21.5%。应用ConPred-Elite对从29个原核生物和10个真核生物蛋白质组中提取的TM蛋白进行预测，分别获得了3871和7271个高可靠的TM拓扑结构，得率分别为19.8%和13.3%。预测的TM拓扑数据可能有助于进一步研究基于拓扑信息的TM蛋白质的全面功能分类和鉴定。(C)2003爱思唯尔有限公司。保留所有权利。
The function of transmembrane (TM) proteins is closely correlated to their TM topology; large quantities of highly reliable TM topology data are becoming increasingly required. We present a new consensus approach for TM topology prediction (ConPred_elite) that can predict the whole topology with accuracies of 0.98 for prokaryotic and 0.95 for eukaryotic proteins on a dataset of experimentally-characterized TM topologies. The predicted yield on the dataset is 30.4% for prokaryotic and 21.5% for eukaryotic proteins. Applying ConPred-elite to predicted TM proteins extracted from 29 prokaryotic and 10 eukaryotic proteomes, we obtained 3871 and 7271 highly reliable TM topologies (yields, 19.8 and 13.3%), respectively. The predicted TM topology data may contribute to further research into a comprehensive functional classification and identification of TM proteins based on information of the topology. (C) 2003 Elsevier Ltd. All rights reserved.