Pei Jimin, Kim Bong-Hyun, Tang Ming, Grishin Nick V
Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, 6001 Forest Park Road, Dallas, Texas 75390-9050, USA.
Nucleic Acids Res. 2007 Jul;35(Web Server issue):W649-52. doi: 10.1093/nar/gkm227. Epub 2007 Apr 22.
Multiple sequence alignments are essential in homology inference, structure modeling, functional prediction and phylogenetic analysis. We developed a web server that constructs multiple protein sequence alignments using PROMALS, a progressive method that improves alignment quality by using additional homologs from PSI-BLAST searches and secondary structure predictions from PSIPRED. PROMALS shows higher alignment accuracy than other advanced methods, such as MUMMALS, ProbCons, MAFFT and SPEM. The PROMALS web server takes FASTA format protein sequences as input. The output includes a colored alignment augmented with information about sequence grouping, predicted secondary structures and positional conservation. The PROMALS web server is available at: http://prodata.swmed.edu/promals/
多序列比对在同源性推断、结构建模、功能预测和系统发育分析中至关重要。我们开发了一个网络服务器，它使用PROMALS构建多蛋白序列比对，PROMALS是一种渐进方法，通过使用来自PSI-BLAST搜索的额外同源物和来自PSIPRED的二级结构预测来提高比对质量。PROMALS比其他先进方法（如MUMMALS、ProbCons、MAFFT和SPEM）具有更高的比对准确性。PROMALS网络服务器以FASTA格式的蛋白质序列作为输入。输出包括一个彩色比对，其中增加了有关序列分组、预测的二级结构和位置保守性的信息。PROMALS网络服务器可在以下网址获取：http://prodata.swmed.edu/promals/
