Arai Masafumi, Mitsuke Hironori, Ikeda Masami, Xia Jun-Xiong, Kikuchi Takashi, Satake Masanobu, Shimizu Toshio
Department of Electronic and Information System Engineering, Faculty of Science and Technology, Hirosaki University, Hirosaki 036-8561, Japan.
Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W390-3. doi: 10.1093/nar/gkh380.
ConPred II (http://bioinfo.si.hirosaki-u.ac.jp/~ConPred2/) is a server for the prediction of transmembrane (TM) topology [i.e. the number of TM segments (TMSs), TMS positions and N-tail location] based on a consensus approach by combining the results of several proposed methods. The ConPred II system is constructed from ConPred_elite and ConPred_all (previously named ConPred), proposed earlier by our group. The prediction accuracy of ConPred_elite is almost 100%, which is achieved by sacrificing the prediction coverage (20-30%). ConPred_all predicts TM topologies for all the input sequences with accuracies improved by up to 11% over individual proposed methods. In the ConPred II system, the TM topology prediction of input TM protein sequences is executed following a two-step process: (i) input sequences are first run through the ConPred_elite program; (ii) sequences for which ConPred_elite does not give the TM topology are delivered to the ConPred_all program for TM topology prediction. Users can get access to the ConPred II system automatically by submitting sequences to the server. The ConPred II server will return the predicted TM topology models and graphical representations of their contents (hydropathy plots, helical wheel diagrams of predicted TMSs and snake-like diagrams).
ConPred II（http://bioinfo.si.hirosaki-u.ac.jp/~ConPred2/）是一个基于共识方法的跨膜（TM）拓扑结构预测服务器，通过结合几种已提出方法的结果来预测跨膜片段数量、跨膜片段位置和N端位置。ConPred II系统由我们团队早期提出的ConPred_elite和ConPred_all（以前称为ConPred）构建而成。ConPred_elite的预测准确率几乎达到100%，但牺牲了预测覆盖率（20%-30%）。ConPred_all为所有输入序列预测TM拓扑结构，其准确率比单个已提出的方法提高了11%。在ConPred II系统中，输入的TM蛋白序列的TM拓扑结构预测分两步进行：（i）输入序列首先通过ConPred_elite程序运行；（ii）ConPred_elite未给出TM拓扑结构的序列被传送到ConPred_all程序进行TM拓扑结构预测。用户通过向服务器提交序列可以自动访问ConPred II系统。ConPred II服务器将返回预测的TM拓扑结构模型及其内容的图形表示（亲水性图、预测跨膜片段的螺旋轮图和蛇形图）。
