Event Title

Challenges in Matching Secondary Structures in Cryo-EM – An Exploration

Student Presenter Information

Devin Haslam, Old Dominion University

Presentation Type

Event

Description/Abstract

Cryo-electron microscopy is a fast emerging biophysical technique for structural determination of large protein complexes. While more atomic structures are being determined using this technique, it is still challenging to derive atomic structures from density maps produced at medium resolution when no suitable templates are available. A critical step in structure determination is how a protein chain threads through the 3- dimensional density map. A dynamic programming method was previously developed to generate K best matches of secondary structures between the density map and its protein sequence using shortest paths in a related weighted graph. We discuss challenges associated with the creation of the weighted graph and explore heuristic methods to solve the problem of matching secondary structures.

Comments

Mentors: Drs. Mohammed Zubair, Desh Ranjan, and Jing He

Location

Learning Commons @ Perry Library, Conference Room 1310

Start Date

18-2-2017 10:15 AM

End Date

18-2-2017 11:15 AM

Full Text of Presentation

wf_no

This document is currently not available here.

Share

COinS
 
Feb 18th, 10:15 AM Feb 18th, 11:15 AM

Challenges in Matching Secondary Structures in Cryo-EM – An Exploration

Learning Commons @ Perry Library, Conference Room 1310

Cryo-electron microscopy is a fast emerging biophysical technique for structural determination of large protein complexes. While more atomic structures are being determined using this technique, it is still challenging to derive atomic structures from density maps produced at medium resolution when no suitable templates are available. A critical step in structure determination is how a protein chain threads through the 3- dimensional density map. A dynamic programming method was previously developed to generate K best matches of secondary structures between the density map and its protein sequence using shortest paths in a related weighted graph. We discuss challenges associated with the creation of the weighted graph and explore heuristic methods to solve the problem of matching secondary structures.