PřF:Bi9410c Structural Biology - practice - Course Information

Bi9410c Structural Biology - practice

Extent and Intensity

0/2/0. 2 credit(s) (fasci plus compl plus > 4). Type of Completion: z (credit).

Teacher(s)

doc. Mgr. David Bednář, Ph.D. (seminar tutor)
Mgr. Ondřej Vávra, Ph.D. (seminar tutor)

Guaranteed by

prof. Mgr. Jiří Damborský, Dr.
Department of Experimental Biology – Biology Section – Faculty of Science
Contact Person: doc. Mgr. David Bednář, Ph.D.
Supplier department: Department of Experimental Biology – Biology Section – Faculty of Science

Timetable

Mon 17. 9. to Fri 14. 12. Thu 12:00–13:50 D29/347-RCX2

Prerequisites

NOW( Bi9410 Structural Biology )
Knowledge on the level of basic lectures of biochemistry or molecular biology.

Course Enrolment Limitations

The course is offered to students of any study field.
The capacity limit for the course is 24 student(s).
Current registration and enrolment status: enrolled: 0/24, only registered: 0/24, only registered with preference (fields directly associated with the programme): 0/24

Course objectives

On successful completion of the course, students will be able to:
operate selected freely available web servers, programs and databases applicable to the study of structure, dynamics and function of biomacromolecules, interaction of proteins with proteins, nucleic acids and small organic molecules.
visualize structure of biomolecules
identify functionally relevant regions of proteins
predict a structure of proteins and theirs complexes
evaluate an effect of mutation on a protein function

Learning outcomes

On successful completion of the course, students will be able to:
operate selected freely available web servers, programs and databases applicable to the study of structure, dynamics and function of biomacromolecules, interaction of proteins with proteins, nucleic acids and small organic molecules.
visualize structure of biomolecules
identify functionally relevant regions of proteins
predict a structure of proteins and theirs complexes
evaluate an effect of mutation on a protein function

Syllabus

• 1. Structure of biomacromolecules – composition, methods for determination, application in biology, visualization.
• 2. Databases of experimental structures – deposition, retrieval and evaluation of structures of macromolecules; selected structural databases.
• 3. Models of structures – databases of models, methods for model quality evaluation, preparation of models.
• 4. Prediction of structure of macromolecular complexes.
• 5. Dynamics of macromolecules – analysis of molecular dynamics and its databases.
• 6. Protein-protein complexes – evaluation of complex, analysis of interactions; databases.
• 7. Protein-DNA complexes – evaluation of complex, analysis of interactions; databases.
• 8. Protein-ligand complexes – evaluation of complex, analysis of interactions; databases.
• 9. Analysis of protein structure – identification of important regions: binding/active sites, transport pathways, flexible regions, catalytic amino acids.
• 10. Modification of protein structure – evaluation of effect of mutation on protein structure and function.
• 11. Application of structural biology – biological research, drug design and development, design of biocatalyst.

Literature

• Computational Structural Biology: Methods and Applications, T. Schwede & M. C. Peitsch, World Scientific Publishing Company, 2008
• Structural Bioinformatics, J. Gu &P. E. Bourne, Wiley-Blackwell, 2009
• Textbook Of Structural Biology, A. Liljas, L. Liljas, J. Piskur, G. Lindblom, P. Nissen, M. Kjeldgaard, World Scientific Publishing Company, 2009

Teaching methods

individual practice in computer lab

Assessment methods

written practical test, 11 exercises awarded 100 points in total, 70 pints are needed to pass.

Language of instruction

Czech

Further Comments

Study Materials
The course is taught annually.

Teacher's information

http://loschmidt.chemi.muni.cz/sbiol

• Enrolment Statistics (Autumn 2018, recent)
  
• Permalink: https://is.muni.cz/course/sci/autumn2018/Bi9410c