"The existence of
evolutionarily
related proteins that possess different folds brings new challenges to
the homology modeling techniques and the structure classification
stratagies and offers new opportunities for protein design in
experimental studies." (Grishin, 2001)
Four mechanisms of fold change in evolution (examples given
in [1])
- Addition/Deletion/Substitution
-
Circular Permutation
- Strand Invasion/Withdrawal
- Beta-hairpin Flip/Swap
*
Examples are provided with ComSubstruct
and
the pairwise DaliLite
server [5, 6].
References
- Grishin, N.V. (2001) Fold change in evolution of protein
structures. J.
Struct. Biol.,
134:167-185.
- Krishna, S.S. and Grishin, N.V. (2004) Structural drift: a
possible pathe to protein fold change. Bioinformatics, 21(8):1308-1310.
- Andreeva, A. and Murzin, A.G. (2006) Evolution of
protein fold in the presence of functional constraits.
Curr. Opin. Struct.
Biol., 16: 399-408.
- Xie, L. and Bourne, E. (2008) Detecting evolutionary
relationships across existing fold space, using sequence
order-independent profile-profile alignments. Proc. Natl. Acad.
Sci. USA, 105:5441-5446.
- Holm, L. and Park J. (2000) DaliLite workbench for
protein structure comparison. Bioinformatics,
16:566-567.
- The pairwise DaliLite
server : http://www.ebi.ac.uk/DaliLite/
[Correction] Grishin, D.G. ==> Grishin, N.V. (2008-09-26)