Saini Harpreet Kaur, Fischer Daniel
Computer Science and Engineering Department, 201 Bell Hall University at Buffalo, Buffalo, NY 14260, USA.
Nucleic Acids Res. 2007 Jul;35(Web Server issue):W499-502. doi: 10.1093/nar/gkm367. Epub 2007 May 30.
We describe FRalanyzer (Fold Recognition alignment analyzer), a new web tool to visually inspect sequence-structure alignments in order to predict functionally important residues in a query sequence of unknown function. This tool is aimed at helping to infer functional relationships between a query sequence and a template structure, and is particularly useful in analyzing fold recognition (FR) results. Because similar folds do not necessarily share the same function, it is not always straightforward to infer a function from an FR result alone. Manual inspection of the FR sequence-structure alignment is often required in order to search for conservation of functionally important residues. FRalanyzer automates parts of this time-consuming process. FRalanyzer takes as input a sequence-structure alignment, automatically searches annotated databases, displays functionally significant residues and highlights the functionally important positions that are identical in the alignment. FRalanyzer can also be used with sequence-structure alignments obtained by other methods, and with structure-structure alignments obtained from structural comparison of newly determined 3D-structures of unknown function. Fralanyzer is available at http://fralanyzer.cse.buffalo.edu/.
我们介绍了FRalanyzer（折叠识别比对分析器），这是一种新的网络工具，用于直观检查序列-结构比对，以便预测未知功能查询序列中功能重要的残基。该工具旨在帮助推断查询序列与模板结构之间的功能关系，在分析折叠识别（FR）结果时特别有用。由于相似的折叠结构不一定具有相同的功能，仅从FR结果推断功能并不总是那么直接。通常需要人工检查FR序列-结构比对，以寻找功能重要残基的保守性。FRalanyzer使这一耗时过程的部分工作自动化。FRalanyzer以序列-结构比对作为输入，自动搜索注释数据库，显示功能显著的残基，并突出显示比对中相同的功能重要位置。FRalanyzer还可用于通过其他方法获得的序列-结构比对，以及从新确定的未知功能3D结构的结构比较中获得的结构-结构比对。可通过http://fralanyzer.cse.buffalo.edu/访问Fralanyzer。
