Accessibility and partner number of protein residues, their relationship and a webserver, ContPlot for their display.

ABSTRACT:

Background

Depending on chemical features residues have preferred locations -- interior or exterior -- in protein structures, which also determine how many other residues are found around them. The close packing of residues is the hallmark of protein interior and protein-protein interaction sites.

Results

The average values of accessible surface area (ASA) and partner number (PN, the number of other residues within a distance of 4.5 A from any atom of a given residue) of different residues have been determined and a webserver, ContPlot has been designed to display these values (relative to the average values) along the protein sequence. This would be useful to visually identify residues that are densely packed, or those involved in protein-protein interactions. The skewness

SUBMITTER: Pal A 

PROVIDER: S-EPMC2680847 | biostudies-literature | 2009 Apr

REPOSITORIES: biostudies-literature