A novel method for identification of local conformational changes in proteins

Biology – Quantitative Biology – Biomolecules

Scientific paper

Rate now

  [ 0.00 ] – not rated yet Voters 0   Comments 0

Details

6 pages, 5 figures. Program ProteinEncoder and detailed data are freely available at http://www.genocript.com

Scientific paper

Motivation: Proteins are known to undergo conformational changes in the course of their functions. The changes in conformation are often attributable to a small fraction of residues within the protein. Therefore identification of these variable regions is important for an understanding of protein function. Results: We propose a novel method for identification of local conformational changes in proteins. In our method, backbone conformations are encoded into a sequence of letters from a 16-letter alphabet (called D2 codes) to perform structural comparison. Since we do not use clustering analysis to encode local structures, the D2 codes not only provides a intuitively understandable description of protein structures, but also covers wide varieties of distortions. This paper shows that the D2 codes are better correlated with changes in the dihedral angles than a structural alphabet and a secondary structure description. In the case of the N37S mutant of HIV-1 protease, local conformational changes were captured by the D2 coding method more accurately than other methods. The D2 coding also provided a reliable representation of the difference between NMR models of an HIV-1 protease mutant.

No associations

LandOfFree

Say what you really think

Search LandOfFree.com for scientists and scientific papers. Rate them and share your experience with other people.

Rating

A novel method for identification of local conformational changes in proteins does not yet have a rating. At this time, there are no reviews or comments for this scientific paper.

If you have personal experience with A novel method for identification of local conformational changes in proteins, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and A novel method for identification of local conformational changes in proteins will most certainly appreciate the feedback.

Rate now

     

Profile ID: LFWR-SCP-O-685665

  Search
All data on this website is collected from public sources. Our data reflects the most accurate information available at the time of publication.