Hi, There are several semi-rational ways to design constructs on the basis of existing structures. It is important to remember that we only partially understand the protein expression and folding - which means that sometimes (way more often then I'd like) all the design considerations have to go out of the window and one has to painstakingly scan the termini in small increments.
If you're interested in further discussion, we should probably take this out of the list. Feel free to drop me a note. Artem > Hello > > I am designing a protein construct for structural biology. It is a protein > kinase > which has not been crystallized earlier. I was comparing the kinase > domains of > other closely related family members characterized biochemically vs > crystallization constructs. For crystallography constructs, there are > different > stretches of amino acid residues particularly at the N-terminus (some > contain > extra 2-5 residues while others have 15-20 residues. > > My question: Is there a rational way of designing exact constructs one > would propose to make, eg., by a sequence alignment showing nearest > homology neighbors that guided construct design etc.. > > > Sincerely > Hari > > Haridasan V. M. Namboodiri, PhD > Scientist-Structural Biology > Locus Pharmaceuticals, Inc. > Four Valley Square > 512 Township Line Road > Blue Bell, PA 19422 > email: vnambood...@locuspharma.com > Ph: 215-358-2012 > Fax: 215-358-2020 >
