LPTD: a novel linear programming-based topology determination method for cryo-EM maps.

ABSTRACT:

Summary

Topology determination is one of the most important intermediate steps toward building the atomic structure of proteins from their medium-resolution cryo-electron microscopy (cryo-EM) map. The main goal in the topology determination is to identify correct matches (i.e. assignment and direction) between secondary structure elements (SSEs) (α-helices and β-sheets) detected in a protein sequence and cryo-EM density map. Despite many recent advances in molecular biology technologies, the problem remains a challenging issue. To overcome the problem, this article proposes a linear programming-based topology determination (LPTD) method to solve the secondary structure topology problem in three-dimensional geometrical space. Through modeling of the protein's sequence with the aid o

SUBMITTER: Behkamal B 

PROVIDER: S-EPMC9306757 | biostudies-literature | 2022 May

REPOSITORIES: biostudies-literature