Analysis and Design of Turns in alpha-Helical HairpinsLahr, S.J., Engel, D.E., Stayrook, S.E., Maglio, O., North, B., Geremia, S., Lombardi, A., Degrado, W.F.
(2005) J.Mol.Biol. 346: 1441-1454
- PubMed: 15713492
- DOI: 10.1016/j.jmb.2004.12.016
- Primary Citation of Related Structures:
- PubMed Abstract:
- Preorganization of molecular binding sites in designed diiron proteins
Maglio, O.,Nastri, F.,Pavone, V.,Lombardi, A.,DeGrado, W.F.
(2003) Proc.Natl.Acad.Sci.USA 100: 3772
- Analysis and design of turns in alpha-helical hairpins
Engel, D.E.,Lahr, S.J.,Stayrook, S.E.,Geremia, S.,DeGrado, W.F.
() TO BE PUBLISHED --: --
- Proton and metal ion-dependent assembly of a model diiron protein
Pasternak, A.,Kaplan, J.,Lear, J.D.,Degrado, W.F.
(2001) Protein Sci. 10: 958
- Inaugural article: retrostructural analysis of metalloproteins: application to the design of a minimal model for diiron proteins
Lombardi, A.,Summa, C.M.,Geremia, S.,Randaccio, L.,Pavone, V.,DeGrado, W.F.
(2000) Proc.Natl.Acad.Sci.USA 97: 6298
Although the analysis and design of turns that connect the strands in antiparallel beta-hairpins has reached an advanced state, much less is known concerning turns between antiparallel helices in helical hairpins. We have conducted an analysis of the ...
Although the analysis and design of turns that connect the strands in antiparallel beta-hairpins has reached an advanced state, much less is known concerning turns between antiparallel helices in helical hairpins. We have conducted an analysis of the structures and sequence preferences of two types of interhelical turns, each of which connects the two helices by a two-residue linker in an alphaL-beta conformation. Based on this analysis, it became apparent that the turn introduced into a designed four-helix bundle protein, DF1, did not occur within an optimal structural context. DF1 is a dimeric model for the diiron class of proteins. A longer loop with a beta-alphaR-beta conformation was inserted between two helices in the protein, and a sequence was chosen to stabilize its conformation. X-ray crystallography and NMR analysis of the protein showed the structure to be in excellent agreement with design.
Department of Biochemistry and Biophysics, University of Pennsylvania, Philadelphia, PA 19104, USA.