Prototypes of elementary functional loops unravel evolutionary connections between protein functions.

ABSTRACT:

Motivation

Earlier studies of protein structure revealed closed loops with a characteristic size 25-30 residues and ring-like shape as a basic universal structural element of globular proteins. Elementary functional loops (EFLs) have specific signatures and provide functional residues important for binding/activation and principal chemical transformation steps of the enzymatic reaction. The goal of this work is to show how these functional loops evolved from pre-domain peptides and to find a set of prototypes from which the EFLs of contemporary proteins originated.

Results

This article describes a computational method for deriving prototypes of EFLs based on the sequences of complete genomes. The procedure comprises the iterative derivation of sequence profiles followed by t

SUBMITTER: Goncearenco A 

PROVIDER: S-EPMC2935408 | biostudies-literature | 2010 Sep

REPOSITORIES: biostudies-literature