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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
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Exploring protein structure and dynamics through a project-oriented biochemistry laboratory module.

James M Lipchock1, Patrick S Ginther1, Bonnie B Douglas1

  • 1Department of Chemistry, Washington College, Chestertown, Maryland, 21620.

Biochemistry and Molecular Biology Education : a Bimonthly Publication of the International Union of Biochemistry and Molecular Biology
|March 16, 2017
PubMed
Summary
This summary is machine-generated.

Undergraduate students explored protein tyrosine phosphatase 1B (PTP1B) enzyme function through mutagenesis in a 10-week biochemistry lab module. This course-based research experience enhanced understanding of biomolecular structure and dynamics.

Keywords:
Integration of research into undergraduate teachingenzymes and catalysislaboratory exercisesprotein structure function and action mechanism

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Area of Science:

  • Biochemistry
  • Molecular Biology
  • Biophysics

Background:

  • Enzyme function is critically dependent on intricate biomolecular structure and dynamics.
  • Protein tyrosine phosphatase 1B (PTP1B) is a biomedically relevant human enzyme.
  • Understanding structure-function relationships is key in biochemical research.

Purpose of the Study:

  • To develop and implement a 10-week project-oriented laboratory module for undergraduates.
  • To provide a course-based undergraduate research experience (CURE) in biochemistry.
  • To emphasize the role of biomolecular structure and dynamics in enzyme function using PTP1B.

Main Methods:

  • Students performed site-directed DNA mutagenesis to create PTP1B mutants.
  • Recombinant protein expression in bacteria and affinity column purification were utilized.
  • Techniques included protein quantitation, SDS-PAGE, and enzyme kinetics assays.

Main Results:

  • Students successfully guided their own PTP1B mutants from conception to characterization.
  • The module provided hands-on experience with fundamental biochemistry techniques.
  • The project-based approach simulated a real research environment.

Conclusions:

  • This module effectively integrates research into the undergraduate biochemistry curriculum.
  • Students gained practical skills and a deeper understanding of enzyme structure-function relationships.
  • The cost-effective module prepares students for future research endeavors.