Misfolded protein sensor method
A catalytic conformational sensor method for detecting abnormal proteins and proteinaceous particles. The method is based on the interaction of a peptide fragment or probe with an abnormal proteinaceous particle. The interaction catalyzes transformation of the probe to a predominately beta sheet conformation and allows the probe to bind to the abnormal proteinaceous particle. This in turn, catalyzes propagation of a signal associated with the test sample-bound probe. As a result signals can be propagated even from samples containing very low concentrations of abnormal proteinaceous particles. The peptide probes can be designed to bind to a desired peptide sequence or can even be based on dendrimer structure to control further aggregate propagation.
1. An in vitro method for detecting a target protein having a predominantly β-sheet secondary structure, comprising:
forming a mixture by adding a propagation catalyst to a sample suspected of containing a target protein having a predominantly β-sheet secondary structure, wherein the propagation catalyst is a peptide that:
(i) has a predominantly alpha-helix and/or random coil secondary structure and interacts with protein having a predominantly β-sheet secondary structure;
(ii) undergoes a conformational shift that results in a decrease in alpha-helix and/or random coil secondary structure and an increase in beta-sheet secondary structure upon contact with protein having a predominantly β-sheet secondary structure or upon contact with another such propagation catalyst that has undergone such a conformational shift; and
(iii) is labeled with pyrene;
allowing the propagation catalyst and any target protein present in the sample to interact; and
detecting any increase in beta-sheet secondary structure in the mixture by detecting pyrene excimer formation, the increase being due, at least in part, to an increase in beta-sheet secondary structure of the propagation catalyst, wherein any such increase indicates the presence of target protein in the sample.
2. The method of claim 1 , wherein said propagation catalyst is labeled with a pyrene label at each of its N-terminus and its C-terminus.
3. The method of claim 2 , wherein when said propagation catalyst undergoes said conformational shift, interaction between the pyrene label at each of its N-terminus and its C-terminus results in pyrene excimer formation.
4. The method of claim 1 , further comprising adjusting a reaction condition to increase or decrease pyrene excimer formation.
5. The method of claim 4 , wherein said reaction condition is selected from the group consisting of: ionic strength of the sample, pH of the sample, concentration of the sample, temperature, and the presence or absence of nucleating agents.
6. The method of claim 1 , further comprising modifying the amino acid sequence of the propagation catalyst to increase or decrease pyrene excimer formation.
7. The method of claim 1 , wherein the method further comprises, prior to the step of adding the propagation catalyst to the sample, the step of subjecting the sample to a disaggregation technique.
8. The method of claim 1 , wherein said detecting step comprises detecting aggregates comprising the propagation catalyst.
9. The method of claim 1 , wherein said target protein is associated with a disease.
10. The method of claim 9 , wherein said disease is selected from the group consisting of Alzheimer's Disease, Huntington's Disease, and prion-associated diseases.
11. The method of claim 10 , wherein said target protein is selected from the group consisting of Aβ protein, huntingtin protein, transmissible spongiform, and prion proteins.
12. The method of claim 1 , wherein said sample comprises a biological sample from a subject.
13. The method of claim 1 , wherein said sample comprises a biological sample from a living subject.
14. The method of claim 1 , wherein said sample comprises a biological sample from a human subject.
15. The method of claim 1 , wherein said sample comprises blood, lymph, CSF, or tissue.
16. The method of claim 1 , wherein said sample comprises a biological sample and a solvent.