Article ID | Journal | Published Year | Pages | File Type |
---|---|---|---|---|
1177477 | Analytical Biochemistry | 2006 | 6 Pages |
Abstract
The side chain interaction index (SCII) is a method of calculating the propensity for short-range interactions among side chains within a peptide sequence. Here, it is shown that the SCII values of secondary structure elements that have been shown to fold early and independently cluster separately from those of structures that fold later and/or are dependent on long-range interactions. In addition, the SCII values of engineered peptides that spontaneously adopt a particular desired fold in solution are significantly different from those of engineered peptides that fail to exhibit a stable conformation. Thus, the SCII, as a measure of local structural stability, constitutes a useful tool in folding prediction and in protein/peptide engineering. A program that allows rapid calculation of SCII values is presented.
Related Topics
Physical Sciences and Engineering
Chemistry
Analytical Chemistry
Authors
Katja Gehenn, Julia Stege, Jennifer Reed,