C8835 Biocoordination chemistry

Faculty of Science
Spring 2019
Extent and Intensity
2/0. 2 credit(s) (fasci plus compl plus > 4). Type of Completion: zk (examination).
Teacher(s)
prof. RNDr. Přemysl Lubal, Ph.D. (lecturer)
doc. Mgr. Petr Táborský, Ph.D. (lecturer)
Guaranteed by
prof. RNDr. Přemysl Lubal, Ph.D.
Department of Chemistry – Chemistry Section – Faculty of Science
Supplier department: Department of Chemistry – Chemistry Section – Faculty of Science
Prerequisites
The requirements are passing of subjects Inorganic chemistry I (C1061), Inorganic chemistry II (C2062), Organic chemistry I (C2021), Organic chemistry II (C3022), Biochemistry I (C3181) and Biochemistry II (C4181). It is recommended to attend courses Bioanalytics I - Biomacromolecules (C7940), Bioanalytics II - Analytical methods in  clinical practice (C7070) and Biophysical chemistry (C5850), it is not necessary.
Course Enrolment Limitations
The course is also offered to the students of the fields other than those the course is directly associated with.
fields of study / plans the course is directly associated with
Course objectives
The main task of this interdisciplinary subject is to understand and explain basic aspects of coordination chemistry of biologically active organic molecules (e.g. aminoacids, oligo- a polypeptides, proteins and metalloproteins, saccharides , nucleosides and nucleotides, nucleic acids, alkaloids, etc.). In the course, it will be presented the importance of detail knowledge composition, structure, termodynamic and kinetic properties of metal complexes with biomolecules in order to understand molecular biological phenomena in Nature. The goal of the course is also demonstration of study literature, databases and software for wide application in the research and a practice connected to dynamically growing branches of chemistry, biochemistry and biology (e.g. bioanalytical chemistry, medicinal and pharmaceutical chemistry, speciation analysis, toxicology, biophysical chemistry, etc.).
Syllabus
  • 1. Introduction to subject, importance for practice - biospeciation. Speciation-definition, examples, application.
  • 2. Theoretical description of chemical equilibria important for speciation modelling in biocoordination chemistry.
  • 3. Experimental methods in biocoordination chemistry. Chemical model determination.
  • 4. Acidobasic properties of bioligands (nomenclature, acidobasic and complexing properties of bioligands on molecular and submolecular level - macro- and micro- equilibria, importance for practice).
  • 5. Complexing properties of aminoacids (acidobasic properties, coordinating aspects of metal ions by aminoacids, survey of complexing properties of aminoacids - bi- and tridentate aminoacids, aminoacids derivatives and their complexing properties, ternary complexes).
  • 6. Complexes peptides and their derivatives (acidobasic and complexing properties of peptides, complexes of Gly-oligopeptides, peptides with non-coordinating and coordinating O or N donor atom of side chain, His peptides, complexes of peptides with sulfur as donor atom).
  • 7. Thermodymamic and kinetic aspects metalloenzymes and metalloproteins (mechanism of metal ion bonding and dissociation in metalloenzymes and metalloproteins, mechanism of bonding and release of small ligands - inhibitors, substrates in metalloenzymes and metalloproteins, structural models of enzymes based on coordination compounds).
  • 8. Complexes of saccharides and ligands with sugar component (general properties, coordination equilibria - complexes of saccharides of low molecular weight, glucofuranosides, saccharide acids, aminosaccharides, macromolecular saccharides; structure and bonding -complexes of mono-, di- a oligosaccharides, complexes of saccharide acids and saccharides with donor nitrogen atom, dimeric and polymeric complexes; redox properties).
  • 9. Interaction of protons and metal ions with bases of nucleic acids, nukleosides and monophosphates of nucleosides (introduction, complexation of purine and its 9-substituted derivatives, complexation of adenosine and adenine, complexation of 6-oxopurine and its nucleosides, complexation of cytidine and cytosine, complexation of 4-oxopyrimidine and its nucleosides, bonding on sugar component of ribonucleotides, complexation of nucleoside of 5-monophosphate, thermodynamics of protolytic and complexation equilibria, correlation stability-basicity, interaction between ligands).
  • 10. Therapeutic utilization of coordination compounds. Development and application of new drugs based on complexes. Diagnostic utilization of coordination compounds (MRI, luminiscence and radioisotope probes).
  • 11. Experimental and numerical methods applied for biospeciation determination.
  • 12. Utilization of structural and biocordination motifs in supramolecular chemistry and bioanalytical chemistry.
Literature
  • Burger K., Biocoordination chemistry: Coordination Equilibria in Biologically Active Systems, Ellis Horwood, Chichester 1990.
  • FENTON, David E. Biocoordination chemistry. 1st pub. Oxford: Oxford University Press, 1995, 91 s. ISBN 0-19-855773-6. info
  • WILKINS, Patricia C. and Ralph G. WILKINS. Inorganic chemistry in biology. Oxford: Oxford University Press, 1997, 91 s. ISBN 0-19-855933-X. info
  • ROAT-MALONE, Rosette M. Bioinorganic chemistry : a short course. Hoboken, N.J.: John Wiley & Sons, 2002, xvii, 348. ISBN 047115976X. info
  • LIPPARD, Stephen J. and Jeremy M. BERG. Principles of bioinorganic chemistry. Mill Valley: University Science Books, 1994, 411 s. ISBN 0-935702-73-3. info
  • KAIM, Wolfgang and Brigitte SCHWEDERSKI. Bioinorganic chemistry : inorganic elements in the chemistry of life : an introduction and guide. Chichester: John Wiley & Sons, 1994, 401 s. ISBN 0-471-94369-X. info
  • JONES, Chris J. and John THORNBACK. Medical applications of coordination chemistry. 1st ed. Cambridge: RSC Publishing, 2007, xv, 353. ISBN 9780854045969. info
  • McCleverty J.A., Meyer T.B. (Eds.), Comprehensive Coordination Chemistry II, Vol. 9, Elsevier, Amsterdam 2003.
  • Handbook of elemental speciation : techniques and methodology. Edited by Rita Cornelis. Chichester: Wiley, 2003, xii, 657. ISBN 0471492140. info
  • Handbook of elemental speciation. Edited by Rita Cornelis. Chichester: John Wiley & Sons, 2005, xix, 768. ISBN 0470855983. info
Teaching methods
lectures
Assessment methods
the lecture is given either in block or in term according to agreement with lecturer
oral exam
Language of instruction
Czech
Further Comments
The course is taught annually.
The course is taught: every week.
The course is also listed under the following terms Spring 2008 - for the purpose of the accreditation, Spring 2011 - only for the accreditation, Spring 2008, Spring 2009, Spring 2010, Spring 2011, Spring 2012, spring 2012 - acreditation, Spring 2013, Spring 2014, Spring 2015, Spring 2016, Spring 2017, spring 2018, Spring 2020, Spring 2021, Spring 2022, Spring 2023, Spring 2024, Spring 2025.
  • Enrolment Statistics (Spring 2019, recent)
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