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301186 VO Structural Bioinformatics II (2020S)
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An/Abmeldung
Hinweis: Ihr Anmeldezeitpunkt innerhalb der Frist hat keine Auswirkungen auf die Platzvergabe (kein "first come, first served").
Details
Sprache: Englisch
Prüfungstermine
Lehrende
Termine (iCal) - nächster Termin ist mit N markiert
preliminary meeting: 3.April 2020, 11.00 -12.00 Uhr
PC-Raum/Strukturbiologie, Viennabiocenter 5,1030 Wien.
June 8 10-17
June 9 10-17
June 10 10-17
June 11 10-17
June 12 10-17Included in the teaching program of the PhD program "Integrative Structural Biology", part of the Vienna Doctoral School.
- Montag 08.06. 10:00 - 17:00 CCR03-Raum 1.113 Campus Vienna Biocenter, 1030 Wien
- Dienstag 09.06. 10:00 - 17:00 CCR03-Raum 1.113 Campus Vienna Biocenter, 1030 Wien
- Mittwoch 10.06. 10:00 - 17:00 CCR03-Raum 1.113 Campus Vienna Biocenter, 1030 Wien
- Donnerstag 11.06. 10:00 - 17:00 CCR03-Raum 1.113 Campus Vienna Biocenter, 1030 Wien
- Freitag 12.06. 10:00 - 17:00 CCR03-Raum 1.113 Campus Vienna Biocenter, 1030 Wien
Information
Ziele, Inhalte und Methode der Lehrveranstaltung
Art der Leistungskontrolle und erlaubte Hilfsmittel
The students will have an oral examination with two main questions, which covers a chapter of the course (for example modeling, computational docking, performance validation etc.) and a small scanning/browsing exercises of the Protein Data Bank.
Mindestanforderungen und Beurteilungsmaßstab
At least 70% of the exercises in the class room must be attended.
First question = 40 points
Second question = 40 points
Databse browsing/scanning = 20 points
First question = 40 points
Second question = 40 points
Databse browsing/scanning = 20 points
Prüfungsstoff
Protein secondary structure prediction
Protein conformational disorder prediction
Protein tertiary structure prediction
Protein quaternary structure prediction
Protein structure refinement
Databases (PDB, CATH, SCOP, ModiDB, DisProt, ModBase)
Introductory notion on molecular dynamics; artificial neural networks; support vector machines
Protein conformational disorder prediction
Protein tertiary structure prediction
Protein quaternary structure prediction
Protein structure refinement
Databases (PDB, CATH, SCOP, ModiDB, DisProt, ModBase)
Introductory notion on molecular dynamics; artificial neural networks; support vector machines
Literatur
M. M. Gromiha. Protein Bioinformatics, Academic Press, 2010
F. Pazos, M. Chagoyen, Practical Protein Bioinformatics, Springer;
2015
F. Pazos, M. Chagoyen, Practical Protein Bioinformatics, Springer;
2015
Zuordnung im Vorlesungsverzeichnis
MMB II-2, MMB W-2, MGE III-2, MMEI III, M-WZB, PhD MB 1
Letzte Änderung: Mi 13.12.2023 00:22
Contents: Theoretical aspects of protein structure prediction methods are presented, including: secondary structure, conformational disorder, coiled-coils, tertiary structure – via homology modelling and threading – quaternary structure. Several exercises are performed by using freely distributed software or online services. The principal databases (PDB, CATH, SCOP, ModiDB, DisProt, ModBase) are described and the procedures to browse/scan then at a professional levels are presented though several small exercises. Molecular mechanics is described and used in three-dimensional model refinement. Introductory information on molecular mechanics and artificial intelligence is provided at the end of the course. Note that student with insufficient physico-chemical background may ask for a private meeting with the lecturer to try to overcome their problems.
Methods: The course will consist in a mixture of lectures and exercises. A structure list of exercises is provided to the student who can solve them home.