Course: Structural Bioinformatics

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Course title Structural Bioinformatics
Course code KFC/STBI
Organizational form of instruction Lecture + Seminar
Level of course Master
Year of study not specified
Semester Winter
Number of ECTS credits 2
Language of instruction Czech, English
Status of course Compulsory, Compulsory-optional
Form of instruction Face-to-face
Work placements This is not an internship
Recommended optional programme components None
Course availability The course is available to visiting students
Lecturer(s)
  • Berka Karel, doc. RNDr. Ph.D.
  • Kührová Petra, Mgr. Ph.D.
  • Zgarbová Marie, Mgr. Ph.D.
Course content
Description of biomacromolecules, Structural hierarchy, proteins, nucleic acids Structure determination (X-Ray, NMR, EM, etc.) Structure file formats PDB database NDB database Other structural databases (CATH, SCOP, Drugbank) Vizualization of structure, structural alignment Structure prediction, CASP Function prediction Ligand docking Challenges of structural bioinformatics - membrane proteins, nucleic acids, protein-protein interactions prediction

Learning activities and teaching methods
Monologic Lecture(Interpretation, Training), Training in job and motor Skils
  • Preparation for the Exam - 60 hours per semester
Learning outcomes
Structural bioinformatics is a part of bioinformatics, which is related to the analysis and prediction of the three-dimensional structure of biomacromolecules for the analysis of their function.
ability to define fundamental concepts, describe fubdamental approaches applied to structural bioinformatics of proteins
Prerequisites
unspecified

Assessment methods and criteria
Oral exam

Structural bioinformatical analysis of model system, discussion on a given topic (2 questions)
Recommended literature
  • Bourne P. & Helge W. (Eds.). (2003). Structural Bioinformatics. Wiley.
  • Eidhammer I., Jonassen I., & Taylor WR. (2004). Protein Bioinformatics - An Algorithmic Approach to Sequence and Structure Analysis. Wiley.
  • Leach AR. (2001). Molecular Modelling - Principles and Applications (2 edition). Pearson Education.
  • Orengo CA., Jones DT., Thornton JM. (Eds.). (2003). Bioinformatics - Genes, Proteins and Computers. Bios Scientific Publishers Ltd.
  • Voet D. & Voet JG. (2004). Biochemistry (3rd edition). Wiley.
  • Zvelebil, M. & Baum, J. (2007). Understanding Bioinformatics. Garland Science.


Study plans that include the course
Faculty Study plan (Version) Branch of study Category Recommended year of study Recommended semester
Faculty of Science Experimental Biology of Plants (1) Biology courses 2 Winter
Faculty of Science Physical Chemistry (2015) Chemistry courses 2 Winter
Faculty of Science Bioinformatics (1) Informatics courses 1 Winter
Faculty of Science Molecular Biophysics (2015) Physics courses 1 Winter