VAMA: a versatile web-based tool for variability analysis in multiply-aligned amino acid sequences VAMA:Variability Analysis of Multiple Alignments
Quantifying residue variability at each column in a multiple sequence alignment of amino acids helps in indicating their similarities, and is useful to highlight information about the significances of each position from the perspective of their structure, function, and evolution. It is becoming increasingly clear that the groups of amino acids that allow conserved replacement vary with the position of the residue in the protein. Most multiple alignment algorithms cater to general users and hence do not address this specific feature. A tool for scoring variability in multiply-aligned amino acid sequences, that allows different conservation groups, is highly desirable. VAMA (Variability Analysis of Multiple Alignments) is a simple yet versatile program that calculates and plots residue variability in a given set of aligned sequences based on known conservation groups specific for different functionally important regions of a protein, and also allows user-defined groups for new discoveries.
Aditi Gupta Aridaman Pandit Somdatta Sinha
Mathematical Modeling and Computational Biology Group, Centre for Cellular and Molecular Biology (CSIR) Hyderabad 500007, India
国际会议
成都
英文
1-4
2010-06-18（万方平台首次上网日期，不代表论文的发表时间）