Supervised multivariate analysis of sequence groups to identify specificity determining residues.

ABSTRACT:

Background

Proteins that evolve from a common ancestor can change functionality over time, and it is important to be able identify residues that cause this change. In this paper we show how a supervised multivariate statistical method, Between Group Analysis (BGA), can be used to identify these residues from families of proteins with different substrate specifities using multiple sequence alignments.

Results

We demonstrate the usefulness of this method on three different test cases. Two of these test cases, the Lactate/Malate dehydrogenase family and Nucleotidyl Cyclases, consist of two functional groups. The other family, Serine Proteases consists of three groups. BGA was used to analyse and visualise these three families using two different encoding schemes for the amino a

SUBMITTER: Wallace IM 

PROVIDER: S-EPMC1878507 | biostudies-literature | 2007 Apr

REPOSITORIES: biostudies-literature