Syllabus for Structural Bioinformatics

Bioinformatisk strukturbiologi

  • 5 credits
  • Course code: 1MB204
  • Education cycle: First cycle
  • Main field(s) of study and in-depth level: Biology G2F, Technology G2F
  • Grading system: Fail (U), Pass (3), Pass with credit (4), Pass with distinction (5)
  • Established: 2016-03-08
  • Established by:
  • Revised: 2019-09-12
  • Revised by: The Faculty Board of Science and Technology
  • Applies from: week 01, 2020
  • Entry requirements: 60 credits within the Master Programme in Molecular Biotechnology Engineering, includning Cell Biology and Basic Chemistry.
  • Responsible department: Biology Education Centre

Learning outcomes

On completion of the course, the student should be able to:

  • explain the relationship between protein sequence and protein structure
  • describe how structure translates into function within different biological fields such as catalysis, transport and regulation
  • estimate the validity of information in macromolecular structure databases, and use computer programs to visualise and analyse macromolecular structures from a functional perspective
  • use bioinformatics tools for sequence alignment, sequence motif identification and prediction of secondary and tertiary structures
  • account for the purpose, theoretical background, and limitations of the above mentioned bioinformatics methods and use this knowledge to interpret relevant results.

Content

Relation between sequence, structure and function. Structural basis for macromolecular dynamics, binding specificity and catalysis.
Overview of biological databases, servers and information centres. Sequence comparisons. Basic macromolecular structure: three-dimensional structure, PDB co-ordinates, classification of proteins in structure families, programs for analysis and comparison of structures. Introduction to the theory of classification and comparison of sequences and extraction of common distinctive features (e.g., motifs). Sequence analysis for prediction of secondary and tertiary structures, and homology modelling of three-dimensional structures based on sequence data.

Instruction

Lectures, seminars and computer exercises. Attendance at seminars and full participation in computer labs is mandatory to pass the course.

Assessment

Written examination (3 credits) , laboratory, exercises and seminars (2 credits) . 
 
If there are special reasons for doing so, an examiner may make an exception from the method of assessment indicated and allow a student to be assessed by another method. An example of special reasons might be a certificate regarding special pedagogical support from the disability coordinator of the university.

Reading list

The reading list is missing. For further information, please contact the responsible department.