Method to identify protein sequences that fold into a known three-dimensional structure
US5436850A · kind A · utility
Assignee
Inventors
Key dates
| Filing date | Mar 28, 1994 |
| Grant date | Jul 25, 1995 |
| Priority date | — |
| Expiry date | Mar 28, 2014 |
Classification
- Technology area (CPC G)Physics
- CPC primaryG16B15/00
- WIPO fieldMeasurement
- WIPO sectorInstruments
Abstract
A computer-assisted method for identifying protein sequences that fold into a known three-dimensional structure. The inventive method attacks the inverse protein folding problem by finding target sequences that are most compatible with profiles representing the structural environments of the residues in known three-dimensional protein structures. The method starts with a known three-dimensional protein structure and determines three key features of each residue's environment within the structure: (1) the total area of the residue's side-chain that is buried by other protein atoms, inaccessible to solvent; (2) the fraction of the side-chain area that is covered by polar atoms (O, N) or water, and (3) the local secondary structure. Based on these parameters, each residue position is categorized into an environment class. In this manner, a three-dimensional protein structure is converted into a one-dimensional environment string, which represents the environment class of each residue in the folded protein structure. A 3D structure profile table is then created containing score values that represent the frequency of finding any of the 20 common amino acids structures at each position o…
Source: USPTO / EPO open patent data. Objective bibliographic and citation counts.