SUPERFICIAL--surface mapping of proteins via structure-based peptide library design.

ABSTRACT:

Background

The determination of protein surfaces and the detection of binding sites are essential to our understanding of protein-protein interactions. Such binding sites can be characterised as linear and non-linear, the non-linear sites being prevailant. Conventional mapping techniques with arrays of synthetic peptides have limitations with regard to the location of discontinuous or non-linear binding sites of proteins.

Results

We present a structure-based approach to the design of peptide libraries that mimic the whole surface or a particular region of a protein. Neighbouring sequence segments are linked by short spacers to conserve local conformation. To this end, we have developed SUPERFICIAL, a program that uses protein structures as input and generates library proposa

SUBMITTER: Goede A 

PROVIDER: S-EPMC1242346 | biostudies-literature | 2005 Sep

REPOSITORIES: biostudies-literature