Computational method and apparatus for predicting...

Details Computational method and apparatus for predicting... Computational method and apparatus for predicting...

2008-05-27

2008-05-27

Borin, Michael (Department: 1631)

Data processing: measuring, calibrating, or testing

Measurement system in a specific environment

Biological or biochemical

C703S011000

Reexamination Certificate

active

11184548

ABSTRACT:
A prediction method for predicting the effect of an amino acid modification on the rate of aggregation (solubility) of a reference polypeptide comprising: calculating the difference in hydrophobicity (ΔHydr) between the reference polypeptide and a modified polypeptide, calculating the difference in β-sheet propensity (ΔΔGcoil-α+ΔΔGβ-coil) between the reference polypeptide and modified polypeptide, calculating the difference in charge (Δ Charge) between the reference polypeptide and modified polypeptide, and calculating: [x*ΔHydr]+[y*(ΔΔGcoil-α+ΔΔGβ-coil)]−[z*Δ Charge], wherein x, y and z are scaling factors.

REFERENCES:
patent: 6188965 (2001-02-01), Mayo et al.
patent: 6269312 (2001-07-01), Mayo et al.
patent: 6708120 (2004-03-01), Mayo et al.
patent: 1255209 (2002-11-01), None
patent: WO-00/17328 (2000-03-01), None
patent: WO-02/42341 (2002-05-01), None
patent: WO-2004/066168 (2004-08-01), None
Qamar et al. J. Biochem, 1993, vol. 114, No. 6 786-792.
“International Search Report for corresponding PCT Application No. PCT/GB2004/000089”, (Jun. 23, 2004), 5 pgs.
Avbelj, F., “Amino Acid Conformational Preferences and Solvation of Polar Backbone Atoms in Peptides and Proteins”,Journal of Molecular Biology, 300(5), (Jul. 28, 2000), 1335-1359.
Avbelj, F., et al., “Role of Main-Chain Electrostatics, Hydrophobic Effect and Side-Chain Conformational Entropy in Determining the Secondary Structure of Proteins”,Journal of Molecular Biology,279(3), (Jun. 12, 1998), 665-684.
De La Paz, M. L., et al., “De novoDesigned Peptide-Based Amyloid Fibrils”, Proc Natl Acad Sci USA., 99(25), (Dec. 10, 2002), 16052-16057.
Siepen, J. A., et al., “The fibril—one On-line Database: Mutations, Experimental Conditions, and Trends Associated With Amyloid Fibril Formation”,Protein Science, 11. (Jul. 2002), 1862-1866.

Affiliated with

Also associated with

Rating

Computational method and apparatus for predicting... does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with Computational method and apparatus for predicting..., we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Computational method and apparatus for predicting... will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFUS-PAI-O-3925206