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Lecturer(s)
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Tůma Roman, prof. Mgr. Ph.D.
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Course content
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Intro -biochemistry and Ligand binding I Delivered by Prof. Jannette Carey (JC, Princeton University) Ligand binding II (JC) Protein structure and properties: (Roman Tuma, RT): Workshop- online and structure visualization tools: AF3, Rossetta, SwissModel, ChimeraX, ProtParams, CD tools/servers etc Nucleic acid biochemistry ? properties, folding, synthesis and applications (RT) Workshop: Follow up on AF3, Rossetta, SwissModel, ChimeraX, ProtParams, CD tools/servers, HW2 assignment and RNA fold, primer design- duplex stability prediction, finding complementarity Nucleic acids and molecular biology ? DNA replication, RNA polymerases (RT) Workshop: follow up on primer design and DNA/RNA analyses and HW3 Chemical and genetic modifications, detection and analyses of biomolecules (RT) Workshop: HW3 questions Guest lecture ? RNA recognition single molecules (Dr. Tomas Fessl) Energy flow in biological systems Ligand binding (HW1) and protein structure (HW2) homework feedback workshop Membranes and membrane protein folding (RT) Signal transduction mechanisms (RT) Various interesting topics (RT) CRISPR CAS-9 gene editing
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Learning activities and teaching methods
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Monologic (reading, lecture, briefing), Dialogic (discussion, interview, brainstorming)
- Class attendance
- 52 hours per semester
- Preparation for exam
- 50 hours per semester
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Learning outcomes
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Students will be able to visualize and analyze structural aspects of biomolecules and their complexes. They will be able to predict properties of common biopolymers from their sequences. Students will be introduced to the theory behind basic methodologies to analybiomolecules in vitro and practice the use of available in silico tools. Students will be introduce to the current knowledge about mechanisms of key macromolecular complexes in cells and their potential applications in biotechnology.
Students know the principles of biochemistry (k1), can describe and explain structures of biomolecules (k2), can apply the gained knowledge in other courses and their research (k3), recognize the structures and structural motifs of biomolecules (k4).
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Prerequisites
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Biochemistry I (UCH/757), knowledge of general, inorganic, organic chemistry and cell biology.
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Assessment methods and criteria
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Test
40% of course mark will come from 4 homework assignments, 20% from in class quizzes and the remaining 40% from written, in class exam scheduled for 19.5. 2015 Passing score is 50% of accrued maximum.
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Recommended literature
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A. L. Lehninger, D. L. Nelson, M. M. Cox: Principles of Biochemistry. Worth Publishers, New York, 1993.
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D. Voet, J. G. Voet: Biochemistry. Victoria Publishing Ltd.
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J. Stenesh: Biochemistry. Plenum Press,New York&London, 1998.
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